[ { "id": "P47035-1.1059.1059", "start_pos": 1059, "end_pos": 1059, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "INATPDKIPVTQLMDMSSPP", "down_seq": "VKSKTTSNPSSILHDLPRKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1059" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.1042.1042", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.1049.1049", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.1066.1066", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.1069.1069", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.1070.1070", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.1066.1066", "start_pos": 1066, "end_pos": 1066, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IPVTQLMDMSSPPSVKSKTT", "down_seq": "NPSSILHDLPRKVRPSLSSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1066" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.1049.1049", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.1059.1059", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.1069.1069", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.1082.1082", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.1084.1084", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.1085.1085", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.1069.1069", "start_pos": 1069, "end_pos": 1069, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TQLMDMSSPPSVKSKTTSNP", "down_seq": "SILHDLPRKVRPSLSSLSDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1069" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.1049.1049", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.1059.1059", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.1066.1066", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.1082.1082", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.1084.1084", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.1085.1085", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.1087.1087", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.1070.1070", "start_pos": 1070, "end_pos": 1070, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLMDMSSPPSVKSKTTSNPS", "down_seq": "ILHDLPRKVRPSLSSLSDLV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1070" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47035-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.1056.1056", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.1059.1059", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.1066.1066", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.1069.1069", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.1082.1082", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.1084.1084", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.1085.1085", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.1087.1087", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.1158.1158", "start_pos": 1158, "end_pos": 1158, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDSKSESDSDDSGDSSDDGK", "down_seq": "FISAKSASAALGKKKKPSGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Ser1158" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P47035-1.1166.1166", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.1166.1166", "start_pos": 1166, "end_pos": 1166, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDDSGDSSDDGKSFISAKSA", "down_seq": "AALGKKKKPSGGFASLIKDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1166" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P47035-1.1158.1158", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNEIDLDDSAPVSLYKSVKR", "down_seq": "KLNNGSPQSVQPQQQIPSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser160" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P47035-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.178.178", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.179.179", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.180.180", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.166.166", "start_pos": 166, "end_pos": 166, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDSAPVSLYKSVKRSKLNNG", "down_seq": "PQSVQPQQQIPSSSGVLRIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser166" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P47035-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.178.178", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.179.179", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.180.180", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APVSLYKSVKRSKLNNGSPQ", "down_seq": "VQPQQQIPSSSGVLRIAKKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P47035-1.160.160", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.166.166", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.178.178", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.179.179", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.180.180", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MYKLQVVLVPPSLQA", "down_seq": "MPIQFGYGPTIAESSQLLPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Thr16" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47035-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.26.26", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.31.31", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.207.207", "start_pos": 207, "end_pos": 207, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKRPPTGTTTTTTIRSATNG", "down_seq": "MRVSTPLARQIYPPPSSKIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser207" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47035-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.194.194", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.196.196", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.197.197", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.198.198", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.199.199", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.211.211", "start_pos": 211, "end_pos": 211, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PTGTTTTTTIRSATNGSMRV", "down_seq": "TPLARQIYPPPSSKIVSNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser211" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47035-1.194.194", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47035-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47035-1.196.196", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.197.197", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.198.198", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.199.199", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Budding yeast relies on G1 cyclin specificity to couple cell cycle progression with morphogenetic development.", "journal": "Science advances", "date": "2021-06", "authors": "Pirincci Ercan Deniz, Chr\u00e9tien Florine, Chakravarty Probir, Flynn Helen R, Snijders Ambrosius P, Uhlmann Frank", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TGTTTTTTIRSATNGSMRVS", "down_seq": "PLARQIYPPPSSKIVSNNSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ], "site_lbl": "Thr212" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.192.192", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P47035-1.194.194", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47035-1.195.195", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47035-1.196.196", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47035-1.197.197", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.198.198", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.199.199", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ATNGSMRVSTPLARQIYPPP", "down_seq": "SKIVSNNSDDEDEDIGERSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47035-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNGSMRVSTPLARQIYPPPS", "down_seq": "KIVSNNSDDEDEDIGERSFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Ser224" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.207.207", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MRVSTPLARQIYPPPSSKIV", "down_seq": "NNSDDEDEDIGERSFLPPPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser228" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47035-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.248.248", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STPLARQIYPPPSSKIVSNN", "down_seq": "DDEDEDIGERSFLPPPTQPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser231" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.211.211", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P47035-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.248.248", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSSKIVSNNSDDEDEDIGER", "down_seq": "FLPPPTQPQSPPIRISSGID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser242" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P47035-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.259.259", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.248.248", "start_pos": 248, "end_pos": 248, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SNNSDDEDEDIGERSFLPPP", "down_seq": "QPQSPPIRISSGIDAGKKIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr248" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47035-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.259.259", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.252.252", "start_pos": 252, "end_pos": 252, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Budding yeast relies on G1 cyclin specificity to couple cell cycle progression with morphogenetic development.", "journal": "Science advances", "date": "2021-06", "authors": "Pirincci Ercan Deniz, Chr\u00e9tien Florine, Chakravarty Probir, Flynn Helen R, Snijders Ambrosius P, Uhlmann Frank", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDEDEDIGERSFLPPPTQPQ", "down_seq": "PPIRISSGIDAGKKIKSSIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ], "site_lbl": "Ser252" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.270.270", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GERSFLPPPTQPQSPPIRIS", "down_seq": "GIDAGKKIKSSIVEEDIVSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.269.269", "start_pos": 269, "end_pos": 269, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QPQSPPIRISSGIDAGKKIK", "down_seq": "SIVEEDIVSRSATVDPDKTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser269" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQSPPIRISSGIDAGKKIKS", "down_seq": "IVEEDIVSRSATVDPDKTKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser270" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47035-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.278.278", "start_pos": 278, "end_pos": 278, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSGIDAGKKIKSSIVEEDIV", "down_seq": "RSATVDPDKTKQQRLLSGTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser278" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GIDAGKKIKSSIVEEDIVSR", "down_seq": "ATVDPDKTKQQRLLSGTPIM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ], "site_lbl": "Ser280" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P47035-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KSSIVEEDIVSRSATVDPDK", "down_seq": "KQQRLLSGTPIMSTMTPNRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ], "site_lbl": "Thr288" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.269.269", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P47035-1.270.270", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DIVSRSATVDPDKTKQQRLL", "down_seq": "GTPIMSTMTPNRVTLTGQRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser295" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47035-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.297.297", "start_pos": 297, "end_pos": 297, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Budding yeast relies on G1 cyclin specificity to couple cell cycle progression with morphogenetic development.", "journal": "Science advances", "date": "2021-06", "authors": "Pirincci Ercan Deniz, Chr\u00e9tien Florine, Chakravarty Probir, Flynn Helen R, Snijders Ambrosius P, Uhlmann Frank", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VSRSATVDPDKTKQQRLLSG", "down_seq": "PIMSTMTPNRVTLTGQRVVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ], "site_lbl": "Thr297" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47035-1.280.280", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.317.317", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.301.301", "start_pos": 301, "end_pos": 301, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ATVDPDKTKQQRLLSGTPIM", "down_seq": "TMTPNRVTLTGQRVVSEHAH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser301" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.317.317", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.302.302", "start_pos": 302, "end_pos": 302, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TVDPDKTKQQRLLSGTPIMS", "down_seq": "MTPNRVTLTGQRVVSEHAHK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Thr302" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.317.317", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.304.304", "start_pos": 304, "end_pos": 304, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Budding yeast relies on G1 cyclin specificity to couple cell cycle progression with morphogenetic development.", "journal": "Science advances", "date": "2021-06", "authors": "Pirincci Ercan Deniz, Chr\u00e9tien Florine, Chakravarty Probir, Flynn Helen R, Snijders Ambrosius P, Uhlmann Frank", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DPDKTKQQRLLSGTPIMSTM", "down_seq": "PNRVTLTGQRVVSEHAHKNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "34088668", "url": "https://glygen.org/publication/PubMed/34088668" } ], "site_lbl": "Thr304" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47035-1.288.288", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.317.317", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PPSLQATMPIQFGYGPTIAE", "down_seq": "SQLLPNRTNMAQSAGDASLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Ser30" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P47035-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.26.26", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QRLLSGTPIMSTMTPNRVTL", "down_seq": "GQRVVSEHAHKNELVFSASA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr311" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47035-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.317.317", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.317.317", "start_pos": 317, "end_pos": 317, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TPIMSTMTPNRVTLTGQRVV", "down_seq": "EHAHKNELVFSASASSSSFA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser317" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47035-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47035-1.302.302", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.335.335", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSLQATMPIQFGYGPTIAES", "down_seq": "QLLPNRTNMAQSAGDASLQY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Ser31" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47035-1.16.16", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.26.26", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VVSEHAHKNELVFSASASSS", "down_seq": "FANGGTAAVTAQDINRKPPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ], "site_lbl": "Ser335" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47035-1.317.317", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.356.356", "start_pos": 356, "end_pos": 356, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FANGGTAAVTAQDINRKPPV", "down_seq": "TPRITSGMLKIPEPRISEIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr356" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47035-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.357.357", "start_pos": 357, "end_pos": 357, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ANGGTAAVTAQDINRKPPVT", "down_seq": "PRITSGMLKIPEPRISEIEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr357" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47035-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.362.362", "start_pos": 362, "end_pos": 362, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AAVTAQDINRKPPVTTPRIT", "down_seq": "GMLKIPEPRISEIEKELKEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser362" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P47035-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.357.357", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.384.384", "start_pos": 384, "end_pos": 384, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MLKIPEPRISEIEKELKEGP", "down_seq": "SPASILPAKAAKIPMKKPYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser384" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47035-1.385.385", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.388.388", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.385.385", "start_pos": 385, "end_pos": 385, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Hog1 activation delays mitotic exit via phosphorylation of Net1.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2020-04-21", "authors": "Tognetti Silvia, Jim\u00e9nez Javier, Vigan\u00f2 Matteo, Duch Alba, Queralt Ethel, de Nadal Eul\u00e0lia, Posas Francesc", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32265285", "url": "https://glygen.org/publication/PubMed/32265285" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32265285", "url": "https://glygen.org/publication/PubMed/32265285", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKIPEPRISEIEKELKEGPS", "down_seq": "PASILPAKAAKIPMKKPYLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32265285", "url": "https://glygen.org/publication/PubMed/32265285" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser385" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47035-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.388.388", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.388.388", "start_pos": 388, "end_pos": 388, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PEPRISEIEKELKEGPSSPA", "down_seq": "ILPAKAAKIPMKKPYLENGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser388" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P47035-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.385.385", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKAAKIPMKKPYLENGENYE", "down_seq": "DDSSSSENQETPETEPHSKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser412" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P47035-1.415.415", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKIPMKKPYLENGENYESDD", "down_seq": "SSSENQETPETEPHSKASLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser415" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P47035-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.433.433", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDSSSSENQETPETEPHSKA", "down_seq": "LQRSQSSIADNNGSPVKNSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser433" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47035-1.415.415", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.452.452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.437.437", "start_pos": 437, "end_pos": 437, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSENQETPETEPHSKASLQR", "down_seq": "QSSIADNNGSPVKNSPLGDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser437" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P47035-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.452.452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.439.439", "start_pos": 439, "end_pos": 439, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ENQETPETEPHSKASLQRSQ", "down_seq": "SIADNNGSPVKNSPLGDAMP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser439" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P47035-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.452.452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YGPTIAESSQLLPNRTNMAQ", "down_seq": "AGDASLQYANLRSANVSFTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser43" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.26.26", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NQETPETEPHSKASLQRSQS", "down_seq": "IADNNGSPVKNSPLGDAMPH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser440" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P47035-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.447.447", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.452.452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.447.447", "start_pos": 447, "end_pos": 447, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EPHSKASLQRSQSSIADNNG", "down_seq": "PVKNSPLGDAMPHNVHLAEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser447" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser447" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser447" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P47035-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.452.452", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.452.452", "start_pos": 452, "end_pos": 452, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASLQRSQSSIADNNGSPVKN", "down_seq": "PLGDAMPHNVHLAELPKASN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser452" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser452" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser452" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47035-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.439.439", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.447.447", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AESSQLLPNRTNMAQSAGDA", "down_seq": "LQYANLRSANVSFTPSYFNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser48" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47035-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47035-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.64.64", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKSSNGESWGKQQEHQPPRK", "down_seq": "SLETIVEKKSQAEPSGIVEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser496" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47035-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.497.497", "start_pos": 497, "end_pos": 497, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSSNGESWGKQQEHQPPRKS", "down_seq": "LETIVEKKSQAEPSGIVEPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser497" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47035-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 16 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Phosphoproteomic responses of TORC1 target kinases reveal discrete and convergent mechanisms that orchestrate the quiescence program in yeast.", "journal": "Cell reports", "date": "2021-12-28", "authors": "Dokl\u00e1dal Ladislav, Stumpe Michael, Hu Zehan, Jaquenoud Malika, Dengjel J\u00f6rn, De Virgilio Claudio", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NGESWGKQQEHQPPRKSSLE", "down_seq": "IVEKKSQAEPSGIVEPKRMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Thr500" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P47035-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.506.506", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.506.506", "start_pos": 506, "end_pos": 506, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KQQEHQPPRKSSLETIVEKK", "down_seq": "QAEPSGIVEPKRMTNFLDDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser506" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P47035-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SQLLPNRTNMAQSAGDASLQ", "down_seq": "ANLRSANVSFTPSYFNQSRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr51" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.69.69", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.534.534", "start_pos": 534, "end_pos": 534, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VEPKRMTNFLDDNQVREKED", "down_seq": "NDKLLEKEILPTIPHNDQPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr534" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.557.557", "start_pos": 557, "end_pos": 557, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLLEKEILPTIPHNDQPILA", "down_seq": "SDKSNGTLKSLAGKVSSNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser557" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47035-1.558.558", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.564.564", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.567.567", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.558.558", "start_pos": 558, "end_pos": 558, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLEKEILPTIPHNDQPILAS", "down_seq": "DKSNGTLKSLAGKVSSNNNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser558" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47035-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.564.564", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.567.567", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KEILPTIPHNDQPILASSDK", "down_seq": "NGTLKSLAGKVSSNNNASKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser561" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P47035-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.558.558", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.564.564", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.567.567", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LPTIPHNDQPILASSDKSNG", "down_seq": "LKSLAGKVSSNNNASKEDGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr564" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P47035-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.558.558", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.567.567", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.584.584", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.567.567", "start_pos": 567, "end_pos": 567, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IPHNDQPILASSDKSNGTLK", "down_seq": "LAGKVSSNNNASKEDGTIIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser567" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P47035-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.558.558", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.564.564", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.584.584", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NRTNMAQSAGDASLQYANLR", "down_seq": "ANVSFTPSYFNQSRFRKFLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.69.69", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.584.584", "start_pos": 584, "end_pos": 584, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TLKSLAGKVSSNNNASKEDG", "down_seq": "IINGTIEDDGNDNDEVDTTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr584" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.564.564", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47035-1.567.567", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47035-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47035-1.603.603", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.602.602", "start_pos": 602, "end_pos": 602, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DGTIINGTIEDDGNDNDEVD", "down_seq": "TVRIVPQDSDSSSFPKSDLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr602" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47035-1.584.584", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.613.613", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.603.603", "start_pos": 603, "end_pos": 603, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GTIINGTIEDDGNDNDEVDT", "down_seq": "VRIVPQDSDSSSFPKSDLFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr603" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.584.584", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.613.613", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47035-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47035-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MAQSAGDASLQYANLRSANV", "down_seq": "FTPSYFNQSRFRKFLLFTKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.69.69", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDDGNDNDEVDTTVRIVPQD", "down_seq": "DSSSFPKSDLFKMIEGDDTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser611" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P47035-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.613.613", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47035-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.613.613", "start_pos": 613, "end_pos": 613, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DGNDNDEVDTTVRIVPQDSD", "down_seq": "SSFPKSDLFKMIEGDDTDLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser613" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P47035-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.614.614", "start_pos": 614, "end_pos": 614, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GNDNDEVDTTVRIVPQDSDS", "down_seq": "SFPKSDLFKMIEGDDTDLPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser614" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P47035-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.613.613", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.615.615", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.615.615", "start_pos": 615, "end_pos": 615, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDNDEVDTTVRIVPQDSDSS", "down_seq": "FPKSDLFKMIEGDDTDLPQW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser615" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P47035-1.602.602", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47035-1.603.603", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.613.613", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.614.614", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.62.62", "start_pos": 62, "end_pos": 62, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Hog1 activation delays mitotic exit via phosphorylation of Net1.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2020-04-21", "authors": "Tognetti Silvia, Jim\u00e9nez Javier, Vigan\u00f2 Matteo, Duch Alba, Queralt Ethel, de Nadal Eul\u00e0lia, Posas Francesc", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32265285", "url": "https://glygen.org/publication/PubMed/32265285" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32265285", "url": "https://glygen.org/publication/PubMed/32265285", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QSAGDASLQYANLRSANVSF", "down_seq": "PSYFNQSRFRKFLLFTKPTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "32265285", "url": "https://glygen.org/publication/PubMed/32265285" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr62" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.69.69", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cdc5 influences phosphorylation of Net1 and disassembly of the RENT complex.", "journal": "BMC molecular biology", "date": "2002-04-17", "authors": "Shou Wenying, Azzam Ramzi, Chen Susan L, Huddleston Michael J, Baskerville Christopher, Charbonneau Harry, Annan Roland S, Carr Steve A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" } ] }, { "title": "Mass spectrometry-based methods for phosphorylation site mapping of hyperphosphorylated proteins applied to Net1, a regulator of exit from mitosis in yeast.", "journal": "Molecular & cellular proteomics : MCP", "date": "2002-03", "authors": "Loughrey Chen Susan, Huddleston Michael J, Shou Wenying, Deshaies Raymond J, Annan Roland S, Carr Steven A", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGDASLQYANLRSANVSFTP", "down_seq": "YFNQSRFRKFLLFTKPTNTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "11960554", "url": "https://glygen.org/publication/PubMed/11960554" }, { "database": "PubMed", "id": "12096118", "url": "https://glygen.org/publication/PubMed/12096118" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47035-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47035-1.69.69", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.676.676", "start_pos": 676, "end_pos": 676, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VLNKDIDNSKPDPRNILPQR", "down_seq": "PRSAAKRAAQLLAGAKKNEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr676" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr676" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr676" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P47035-1.679.679", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.679.679", "start_pos": 679, "end_pos": 679, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDIDNSKPDPRNILPQRTPR", "down_seq": "AAKRAAQLLAGAKKNEVPQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" } ], "site_lbl": "Ser679" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P47035-1.676.676", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LQYANLRSANVSFTPSYFNQ", "down_seq": "RFRKFLLFTKPTNTLLNLSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser69" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47035-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47035-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.64.64", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.734.734", "start_pos": 734, "end_pos": 734, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SESGIETDFSSDDDFKRKNM", "down_seq": "VPNNGPKDISLHSLKGSVVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser734" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P47035-1.744.744", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47035-1.747.747", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.744.744", "start_pos": 744, "end_pos": 744, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Phosphorylation by cyclin B-Cdk underlies release of mitotic exit activator Cdc14 from the nucleolus.", "journal": "Science (New York, N.Y.)", "date": "2004-07-23", "authors": "Azzam Ramzi, Chen Susan L, Shou Wenying, Mah Angie S, Alexandru Gabriela, Nasmyth Kim, Annan Roland S, Carr Steven A, Deshaies Raymond J", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDDDFKRKNMSVPNNGPKDI", "down_seq": "LHSLKGSVVPVKDSKIINKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "15273393", "url": "https://glygen.org/publication/PubMed/15273393" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser744" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P47035-1.734.734", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47035-1.747.747", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.747.747", "start_pos": 747, "end_pos": 747, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DFKRKNMSVPNNGPKDISLH", "down_seq": "LKGSVVPVKDSKIINKEVDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser747" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P47035-1.734.734", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.744.744", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.787.787", "start_pos": 787, "end_pos": 787, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EERNDKRDSQKKSAVSESSV", "down_seq": "NSKISEQMAKSFYPNSNKKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr787" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P47035-1.779.779", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47035-1.782.782", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47035-1.784.784", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.785.785", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.789.789", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.803.803", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.803.803", "start_pos": 803, "end_pos": 803, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESSVTNSKISEQMAKSFYPN", "down_seq": "NKKQNEATKVETKPATQASS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser803" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47035-1.784.784", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P47035-1.785.785", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47035-1.787.787", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47035-1.789.789", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47035-1.823.823", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.823.823", "start_pos": 823, "end_pos": 823, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNKKQNEATKVETKPATQAS", "down_seq": "FPVVGGSPSVATKGTTSFNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser823" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47035-1.803.803", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.830.830", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.832.832", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47035-1.838.838", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47035-1.839.839", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47035-1.840.840", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.830.830", "start_pos": 830, "end_pos": 830, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ATKVETKPATQASSFPVVGG", "down_seq": "PSVATKGTTSFNEEGNRKNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser830" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P47035-1.823.823", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.832.832", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.838.838", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47035-1.839.839", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47035-1.840.840", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.832.832", "start_pos": 832, "end_pos": 832, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KVETKPATQASSFPVVGGSP", "down_seq": "VATKGTTSFNEEGNRKNVKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser832" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P47035-1.823.823", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.830.830", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47035-1.838.838", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47035-1.839.839", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47035-1.840.840", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.838.838", "start_pos": 838, "end_pos": 838, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ATQASSFPVVGGSPSVATKG", "down_seq": "TSFNEEGNRKNVKTKAKNES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr838" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47035-1.823.823", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.830.830", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47035-1.832.832", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.839.839", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47035-1.840.840", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.839.839", "start_pos": 839, "end_pos": 839, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TQASSFPVVGGSPSVATKGT", "down_seq": "SFNEEGNRKNVKTKAKNESA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr839" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47035-1.823.823", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47035-1.830.830", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47035-1.832.832", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.838.838", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47035-1.840.840", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.840.840", "start_pos": 840, "end_pos": 840, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" }, { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QASSFPVVGGSPSVATKGTT", "down_seq": "FNEEGNRKNVKTKAKNESAQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser840" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47035-1.823.823", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47035-1.830.830", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47035-1.832.832", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47035-1.838.838", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47035-1.839.839", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47035-1.877.877", "start_pos": 877, "end_pos": 877, "uniprot_canonical_ac": "P47035-1", "length": 1189, "uniprot_id": "NET1_YEAST", "protein_name": "Nucleolar protein NET1", "refseq_ac": "NP_012459", "refseq_name": "Net1p", "gene_name": "NET1", "gene_names_uniprotkb": "NET1; CFI1; ESC5; J1038; SRM8", "gene_names_refseq": "CFI1; ESC5; NET1; SRM8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47035", "url": "https://www.uniprot.org/uniprotkb/P47035" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESAQIDRQQKETTSRVADLK", "down_seq": "ANIGGEDLNKKAEGSKEPEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47035", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47035" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003612", "url": "https://www.yeastgenome.org/locus/S000003612" } ], "site_lbl": "Ser877" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "784", "end_pos": "784" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "789", "end_pos": "789" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1025", "end_pos": "1025" }, { "start_pos": "1026", "end_pos": "1026" }, { "start_pos": "1032", "end_pos": "1032" }, { "start_pos": "1034", "end_pos": "1034" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1049", "end_pos": "1049" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "1059", "end_pos": "1059" }, { "start_pos": "1066", "end_pos": "1066" }, { "start_pos": "1069", "end_pos": "1069" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1084", "end_pos": "1084" }, { "start_pos": "1085", "end_pos": "1085" }, { "start_pos": "1087", "end_pos": "1087" }, { "start_pos": "1091", "end_pos": "1091" }, { "start_pos": "1158", "end_pos": "1158" }, { "start_pos": "1166", "end_pos": "1166" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "166", "end_pos": "166" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "269", "end_pos": "269" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "302", "end_pos": "302" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "439", "end_pos": "439" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "452", "end_pos": "452" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "567", "end_pos": "567" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "584", "end_pos": "584" }, { "start_pos": "602", "end_pos": "602" }, { "start_pos": "603", "end_pos": "603" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "615", "end_pos": "615" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "744", "end_pos": "744" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "779", "end_pos": "779" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "785", "end_pos": "785" }, { "start_pos": "787", "end_pos": "787" }, { "start_pos": "803", "end_pos": "803" }, { "start_pos": "823", "end_pos": "823" }, { "start_pos": "830", "end_pos": "830" }, { "start_pos": "832", "end_pos": "832" }, { "start_pos": "838", "end_pos": "838" }, { "start_pos": "839", "end_pos": "839" }, { "start_pos": "840", "end_pos": "840" }, { "start_pos": "877", "end_pos": "877" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.188.190", "start_pos": 188, "end_pos": 190, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation of luminal region of the SUN-domain protein Mps3 promotes nuclear envelope localization during meiosis.", "journal": "eLife", "date": "2021-09-29", "authors": "Prasada Rao Hanumanthu Bd, Sato Takeshi, Challa Kiran, Fujita Yurika, Shinohara Miki, Shinohara Akira", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "TSS", "start_aa": "T", "up_seq": "GSFLMTTVKNNDLESHSSGA", "down_seq": "PGKSFSNLQKQVNHLYSELS", "mutagenesis": [ { "sequence_org": "TSS", "sequence_mut": "AAA", "comment": "Impairs the localization to the nuclear inner membrane.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" } ] }, { "sequence_org": "TSS", "sequence_mut": "DDD", "comment": "Mimics constitutive phosphorylation and blocks the regulation of the localization to nuclear inner membrane.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47069-1.189.189", "categories": [ "phosphorylation_flag" ] }, { "distance": 0, "direction": "upstream", "id": "P47069-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.465.465", "start_pos": 465, "end_pos": 465, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "LLNHLTSPTWRQGSGVQPIE", "down_seq": "LTDSKQSSSTYWQCENEPGC", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "E", "comment": "Lethal; when associated with E-466.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47069-1.466.466", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.472.472", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.466.466", "start_pos": 466, "end_pos": 466, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "LNHLTSPTWRQGSGVQPIEL", "down_seq": "TDSKQSSSTYWQCENEPGCS", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "E", "comment": "Lethal; when associated with E-465.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47069-1.465.465", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.472.472", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps3p is a novel component of the yeast spindle pole body that interacts with the yeast centrin homologue Cdc31p.", "journal": "The Journal of cell biology", "date": "2002-12-23", "authors": "Jaspersen Sue L, Giddings Thomas H, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "12486115", "url": "https://glygen.org/publication/PubMed/12486115" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12486115", "url": "https://glygen.org/publication/PubMed/12486115", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PTWRQGSGVQPIELLTDSKQ", "down_seq": "SSTYWQCENEPGCSWAIRFK", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "N", "comment": "In mps3-1; defective in spindle pole body assembly and duplication.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "12486115", "url": "https://glygen.org/publication/PubMed/12486115" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P47069-1.465.465", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.466.466", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "QGSGVQPIELLTDSKQSSST", "down_seq": "WQCENEPGCSWAIRFKTPLY", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "C", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P47069-1.465.465", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47069-1.466.466", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47069-1.472.472", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.477.477", "start_pos": 477, "end_pos": 477, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "GSGVQPIELLTDSKQSSSTY", "down_seq": "QCENEPGCSWAIRFKTPLYL", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P47069-1.465.465", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.466.466", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.472.472", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "TDSKQSSSTYWQCENEPGCS", "down_seq": "AIRFKTPLYLTKISYMHGRF", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47069-1.472.472", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.489.489", "start_pos": 489, "end_pos": 489, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "SKQSSSTYWQCENEPGCSWA", "down_seq": "RFKTPLYLTKISYMHGRFTN", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "H", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47069-1.472.472", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "P", "start_aa": "P", "up_seq": "STYWQCENEPGCSWAIRFKT", "down_seq": "LYLTKISYMHGRFTNNLHIM", "mutagenesis": [ { "sequence_org": "P", "sequence_mut": "A", "comment": "Lethal; when associated with A-495; A-496; A-497 and A-498.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.495.495", "start_pos": 495, "end_pos": 495, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "TYWQCENEPGCSWAIRFKTP", "down_seq": "YLTKISYMHGRFTNNLHIMN", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "Lethal; when associated with A-494; A-496; A-497 and A-498.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "YWQCENEPGCSWAIRFKTPL", "down_seq": "LTKISYMHGRFTNNLHIMNS", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "Lethal; when associated with A-494; A-495; A-497 and A-498.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47069-1.476.476", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.497.497", "start_pos": 497, "end_pos": 497, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "WQCENEPGCSWAIRFKTPLY", "down_seq": "TKISYMHGRFTNNLHIMNSA", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "Lethal; when associated with A-494; A-495; A-496 and A-498.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47069-1.477.477", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.498.498", "start_pos": 498, "end_pos": 498, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QCENEPGCSWAIRFKTPLYL", "down_seq": "KISYMHGRFTNNLHIMNSAP", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Lethal; when associated with A-494; A-495; A-496 and A-497.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "ENEPGCSWAIRFKTPLYLTK", "down_seq": "SYMHGRFTNNLHIMNSAPRL", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "D", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.502.502", "start_pos": 502, "end_pos": 502, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EPGCSWAIRFKTPLYLTKIS", "down_seq": "MHGRFTNNLHIMNSAPRLIS", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "H", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "GCSWAIRFKTPLYLTKISYM", "down_seq": "GRFTNNLHIMNSAPRLISLY", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47069-1.487.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47069-1.489.489", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.523.523", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.512.512", "start_pos": 512, "end_pos": 512, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "KTPLYLTKISYMHGRFTNNL", "down_seq": "IMNSAPRLISLYVKLSQTKE", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "P", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47069-1.494.494", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47069-1.495.495", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47069-1.496.496", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.523.523", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "LTKISYMHGRFTNNLHIMNS", "down_seq": "PRLISLYVKLSQTKEIKALQ", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "P", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47069-1.497.497", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P47069-1.498.498", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47069-1.500.500", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47069-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.523.523", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.523.523", "start_pos": 523, "end_pos": 523, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "MHGRFTNNLHIMNSAPRLIS", "down_seq": "YVKLSQTKEIKALQTLANQY", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "K", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47069-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.512.512", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.517.517", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.540.540", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.540.540", "start_pos": 540, "end_pos": 540, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "LISLYVKLSQTKEIKALQTL", "down_seq": "NQYGFGQHHKRDRNYIKIAK", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "D", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47069-1.523.523", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "DRNYIKIAKFEYRLTDSRIR", "down_seq": "QMYLPPWFIQLKPLVRSIVF", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "L", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius; when associated with L-573.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47069-1.573.573", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.573.573", "start_pos": 573, "end_pos": 573, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "RNYIKIAKFEYRLTDSRIRQ", "down_seq": "MYLPPWFIQLKPLVRSIVFQ", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "L", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius; when associated with L-572.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47069-1.572.572", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.590.590", "start_pos": 590, "end_pos": 590, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "IRQQMYLPPWFIQLKPLVRS", "down_seq": "VFQVDENYGNKKFISLRKFI", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "D", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47069-1.572.572", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47069-1.573.573", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.592.592", "start_pos": 592, "end_pos": 592, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "QQMYLPPWFIQLKPLVRSIV", "down_seq": "QVDENYGNKKFISLRKFIIN", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "S", "comment": "Defective in spindle pole body duplication at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47069-1.572.572", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P47069-1.573.573", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "QMYLPPWFIQLKPLVRSIVF", "down_seq": "VDENYGNKKFISLRKFIING", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "A", "comment": "Lethal; when associated with D-594.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47069-1.573.573", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.594.594", "start_pos": 594, "end_pos": 594, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "MYLPPWFIQLKPLVRSIVFQ", "down_seq": "DENYGNKKFISLRKFIINGV", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "D", "comment": "Lethal; when associated with A-593.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.597.597", "start_pos": 597, "end_pos": 597, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Nep98p is a component of the yeast spindle pole body and essential for nuclear division and fusion.", "journal": "The Journal of biological chemistry", "date": "2003-03-14", "authors": "Nishikawa Shuh-Ichi, Terazawa Yumiko, Nakayama Takeshi, Hirata Aiko, Makio Tadashi, Endo Toshiya", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "12493774", "url": "https://glygen.org/publication/PubMed/12493774" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12493774", "url": "https://glygen.org/publication/PubMed/12493774", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "PPWFIQLKPLVRSIVFQVDE", "down_seq": "YGNKKFISLRKFIINGVTPQ", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "K", "comment": "In nep98-7; defective in spindle organization during nuclear division and in G2/M progression.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "12493774", "url": "https://glygen.org/publication/PubMed/12493774" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.599.599", "start_pos": 599, "end_pos": 599, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "WFIQLKPLVRSIVFQVDENY", "down_seq": "NKKFISLRKFIINGVTPQDL", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.604.604", "start_pos": 604, "end_pos": 604, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "KPLVRSIVFQVDENYGNKKF", "down_seq": "SLRKFIINGVTPQDLQIIEN", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "W", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PLVRSIVFQVDENYGNKKFI", "down_seq": "LRKFIINGVTPQDLQIIENN", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "C", "comment": "Lethal; when associated with Q-606.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.606.606", "start_pos": 606, "end_pos": 606, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "LVRSIVFQVDENYGNKKFIS", "down_seq": "RKFIINGVTPQDLQIIENNE", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "Q", "comment": "Lethal; when associated with C-605.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47069-1.590.590", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "VFQVDENYGNKKFISLRKFI", "down_seq": "NGVTPQDLQIIENNEFPVLL", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "R", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P47069-1.592.592", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47069-1.613.613", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.613.613", "start_pos": 613, "end_pos": 613, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Sad1-UNC-84 homology domain in Mps3 interacts with Mps2 to connect the spindle pole body with the nuclear envelope.", "journal": "The Journal of cell biology", "date": "2006-08-28", "authors": "Jaspersen Sue L, Martin Adriana E, Glazko Galina, Giddings Thomas H, Morgan Garry, Mushegian Arcady, Winey Mark", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "reference": [ { "type": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "QVDENYGNKKFISLRKFIIN", "down_seq": "VTPQDLQIIENNEFPVLLGD", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "16923827", "url": "https://glygen.org/publication/PubMed/16923827" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P47069-1.593.593", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P47069-1.594.594", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47069-1.597.597", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P47069-1.599.599", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47069-1.604.604", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47069-1.605.605", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47069-1.606.606", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47069-1.611.611", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation of luminal region of the SUN-domain protein Mps3 promotes nuclear envelope localization during meiosis.", "journal": "eLife", "date": "2021-09-29", "authors": "Prasada Rao Hanumanthu Bd, Sato Takeshi, Challa Kiran, Fujita Yurika, Shinohara Miki, Shinohara Akira", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SFLMTTVKNNDLESHSSGAT", "down_seq": "SPGKSFSNLQKQVNHLYSEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" }, { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "site_lbl": "Ser189" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47069-1.188.190", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47069-1.190.190", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation of luminal region of the SUN-domain protein Mps3 promotes nuclear envelope localization during meiosis.", "journal": "eLife", "date": "2021-09-29", "authors": "Prasada Rao Hanumanthu Bd, Sato Takeshi, Challa Kiran, Fujita Yurika, Shinohara Miki, Shinohara Akira", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" } ] } ], "crossref": [ { "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FLMTTVKNNDLESHSSGATS", "down_seq": "PGKSFSNLQKQVNHLYSELS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" }, { "database": "PubMed", "id": "34586062", "url": "https://glygen.org/publication/PubMed/34586062" }, { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "site_lbl": "Ser190" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "downstream", "id": "P47069-1.188.190", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47069-1.189.189", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AVKSAYADVLKDKMNREQEI", "down_seq": "LRAIKKGIYTDGGETDNYDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser44" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P47069-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47069-1.59.59", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MNN", "down_seq": "NEHRREEAGAANEQMPYNKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KDKMNREQEISLRAIKKGIY", "down_seq": "DGGETDNYDMDKENDSAYEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr54" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P47069-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47069-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47069-1.70.70", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "REQEISLRAIKKGIYTDGGE", "down_seq": "DNYDMDKENDSAYEMFKKNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr59" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P47069-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47069-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47069-1.70.70", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47069-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P47069-1", "length": 682, "uniprot_id": "MPS3_YEAST", "protein_name": "Spindle pole body assembly component MPS3", "refseq_ac": "NP_012515", "refseq_name": "Mps3p", "gene_name": "MPS3", "gene_names_uniprotkb": "MPS3; J1310; J1315; NEP98; YJL018W", "gene_names_refseq": "MPS3; NEP98; YJL018W", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47069", "url": "https://www.uniprot.org/uniprotkb/P47069" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cleavage of the SUN-domain protein Mps3 at its N-terminus regulates centrosome disjunction in budding yeast meiosis.", "journal": "PLoS genetics", "date": "2017-06", "authors": "Li Ping, Jin Hui, Koch Bailey A, Abblett Rebecca L, Han Xuemei, Yates John R, Yu Hong-Guo", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "28609436", "url": "https://glygen.org/publication/PubMed/28609436" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "28609436", "url": "https://glygen.org/publication/PubMed/28609436", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGIYTDGGETDNYDMDKEND", "down_seq": "AYEMFKKNLDFPLDQHNDDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47069", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47069" }, { "database": "PubMed", "id": "28609436", "url": "https://glygen.org/publication/PubMed/28609436" }, { "database": "SGD", "id": "S000003556", "url": "https://www.yeastgenome.org/locus/S000003556" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "188", "end_pos": "190" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "466", "end_pos": "466" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "489", "end_pos": "489" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "523", "end_pos": "523" }, { "start_pos": "540", "end_pos": "540" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "573", "end_pos": "573" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "592", "end_pos": "592" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "599", "end_pos": "599" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "189", "end_pos": "189" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47069-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P47069-1.59.59", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47103-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "P47103-1", "length": 393, "uniprot_id": "CYP7_YEAST", "protein_name": "Peptidyl-prolyl cis-trans isomerase CYP7", "refseq_ac": "NP_012566", "refseq_name": "peptidylprolyl isomerase CPR7", "gene_name": "CPR7", "gene_names_uniprotkb": "CPR7; J1585", "gene_names_refseq": "CPR7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47103", "url": "https://www.uniprot.org/uniprotkb/P47103" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47103", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47103" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003793", "url": "https://www.yeastgenome.org/locus/S000003793", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47103", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47103", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSSSVGKGGCSIYADKEEVK", "down_seq": "DDESFCYGNFEDENLGEFVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003793", "url": "https://www.yeastgenome.org/locus/S000003793" }, { "database": "iPTMnet", "id": "P47103", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47103" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr105" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "47", "end_pos": "47" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47103-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P47103-1", "length": 393, "uniprot_id": "CYP7_YEAST", "protein_name": "Peptidyl-prolyl cis-trans isomerase CYP7", "refseq_ac": "NP_012566", "refseq_name": "peptidylprolyl isomerase CPR7", "gene_name": "CPR7", "gene_names_uniprotkb": "CPR7; J1585", "gene_names_refseq": "CPR7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47103", "url": "https://www.uniprot.org/uniprotkb/P47103" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47103", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47103" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003793", "url": "https://www.yeastgenome.org/locus/S000003793", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47103", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47103", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "REKAPKTTENFYKLCAGDVK", "down_seq": "PLKDQQYLSYKGNGFHRVVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003793", "url": "https://www.yeastgenome.org/locus/S000003793" }, { "database": "iPTMnet", "id": "P47103", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47103" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "47", "end_pos": "47" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IKNSYELKVSESSKIIERTK", "down_seq": "LEEKSKPLVRPTARSKTTPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr129" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.158.158", "start_pos": 158, "end_pos": 158, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VRPTARSKTTPEETTGRKSK", "down_seq": "KDMGLRSTALLAKMKKDRDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser158" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PEREAQMKELNNLFVEDDLD", "down_seq": "EEVNGGSKPNSPKETDSNDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" } ], "site_lbl": "Thr223" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P47110-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47110-1.234.234", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KELNNLFVEDDLDTEEVNGG", "down_seq": "KPNSPKETDSNDKDKNNDDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P47110-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47110-1.234.234", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NLFVEDDLDTEEVNGGSKPN", "down_seq": "PKETDSNDKDKNNDDLEDLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser234" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P47110-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47110-1.230.230", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.256.256", "start_pos": 256, "end_pos": 256, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KETDSNDKDKNNDDLEDLLE", "down_seq": "TAEDSLMDVPKIQQTKPSET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr256" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P47110-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47110-1.261.261", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ETDSNDKDKNNDDLEDLLET", "down_seq": "AEDSLMDVPKIQQTKPSETE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr257" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P47110-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P47110-1.261.261", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDKDKNNDDLEDLLETTAED", "down_seq": "LMDVPKIQQTKPSETEHSKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser261" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P47110-1.256.256", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P47110-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47110-1.279.279", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.279.279", "start_pos": 279, "end_pos": 279, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDSLMDVPKIQQTKPSETEH", "down_seq": "KEPKSEEEPSSFIDEDGYIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser279" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47110-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47110-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.284.284", "start_pos": 284, "end_pos": 284, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DVPKIQQTKPSETEHSKEPK", "down_seq": "EEEPSSFIDEDGYIVTKRPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser284" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P47110-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.289.289", "start_pos": 289, "end_pos": 289, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQTKPSETEHSKEPKSEEEP", "down_seq": "SFIDEDGYIVTKRPATSTPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser289" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P47110-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P47110-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47110-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47110-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P47110-1.307.307", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.290.290", "start_pos": 290, "end_pos": 290, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QTKPSETEHSKEPKSEEEPS", "down_seq": "FIDEDGYIVTKRPATSTPPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser290" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P47110-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47110-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P47110-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47110-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P47110-1.307.307", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.297.297", "start_pos": 297, "end_pos": 297, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EHSKEPKSEEEPSSFIDEDG", "down_seq": "IVTKRPATSTPPRKPSPVVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr297" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47110-1.279.279", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P47110-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47110-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P47110-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P47110-1.307.307", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P47110-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EEEPSSFIDEDGYIVTKRPA", "down_seq": "STPPRKPSPVVKRALSSSKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr305" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47110-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P47110-1.307.307", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P47110-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEPSSFIDEDGYIVTKRPAT", "down_seq": "TPPRKPSPVVKRALSSSKKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47110-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P47110-1.307.307", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P47110-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.307.307", "start_pos": 307, "end_pos": 307, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EPSSFIDEDGYIVTKRPATS", "down_seq": "PPRKPSPVVKRALSSSKKQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr307" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P47110-1.289.289", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P47110-1.290.290", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P47110-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P47110-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P47110-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.313.313", "start_pos": 313, "end_pos": 313, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" }, { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DEDGYIVTKRPATSTPPRKP", "down_seq": "PVVKRALSSSKKQETPSSNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003804", "url": "https://www.yeastgenome.org/locus/S000003804" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser313" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P47110-1.297.297", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P47110-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P47110-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P47110-1.307.307", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P47110-1.340.340", "start_pos": 340, "end_pos": 340, "uniprot_canonical_ac": "P47110-1", "length": 350, "uniprot_id": "DPOD3_YEAST", "protein_name": "DNA polymerase delta subunit 3", "refseq_ac": "NP_012577", "refseq_name": "DNA polymerase delta subunit POL32", "gene_name": "POL32", "gene_names_uniprotkb": "POL32; J1626", "gene_names_refseq": "POL32; REV5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P47110", "url": "https://www.uniprot.org/uniprotkb/P47110" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LSSSKKQETPSSNKRLKKQG", "down_seq": "LESFFKRKAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P47110", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P47110" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr340" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "158", "end_pos": "158" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "256", "end_pos": "256" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "279", "end_pos": "279" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "289", "end_pos": "289" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "297", "end_pos": "297" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "340", "end_pos": "340" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48365-1.458.458", "start_pos": 458, "end_pos": 458, "uniprot_canonical_ac": "P48365-1", "length": 746, "uniprot_id": "GYP7_YEAST", "protein_name": "GTPase-activating protein GYP7", "refseq_ac": "NP_010047", "refseq_name": "GTPase-activating protein GYP7", "gene_name": "GYP7", "gene_names_uniprotkb": "GYP7", "gene_names_refseq": "GYP7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of the catalytic domains and their functionally critical arginine residues of two yeast GTPase-activating proteins specific for Ypt/Rab transport GTPases.", "journal": "The EMBO journal", "date": "1999-10-01", "authors": "Albert S, Will E, Gallwitz D", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "reference": [ { "type": "PubMed", "id": "10508155", "url": "https://glygen.org/publication/PubMed/10508155" } ] } ], "crossref": [ { "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10508155", "url": "https://glygen.org/publication/PubMed/10508155", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "DEDEEEYWNDQLFRISKDVR", "down_seq": "CDRNLEIFQYNTIDGLPPPP", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Completely abolishes catalytic activity.", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "PubMed", "id": "10508155", "url": "https://glygen.org/publication/PubMed/10508155" } ] }, { "sequence_org": "R", "sequence_mut": "K", "comment": "Completely abolishes catalytic activity.", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "PubMed", "id": "10508155", "url": "https://glygen.org/publication/PubMed/10508155" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "458", "end_pos": "458" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48365-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "P48365-1", "length": 746, "uniprot_id": "GYP7_YEAST", "protein_name": "GTPase-activating protein GYP7", "refseq_ac": "NP_010047", "refseq_name": "GTPase-activating protein GYP7", "gene_name": "GYP7", "gene_names_uniprotkb": "GYP7", "gene_names_refseq": "GYP7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NELMELKKSNLEPEFWLVNP", "down_seq": "LNDLRNFVSKDLLESYNNSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser198" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "458", "end_pos": "458" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48365-1.262.262", "start_pos": 262, "end_pos": 262, "uniprot_canonical_ac": "P48365-1", "length": 746, "uniprot_id": "GYP7_YEAST", "protein_name": "GTPase-activating protein GYP7", "refseq_ac": "NP_010047", "refseq_name": "GTPase-activating protein GYP7", "gene_name": "GYP7", "gene_names_uniprotkb": "GYP7", "gene_names_refseq": "GYP7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VMSKIADVTTKSTNFIDSWL", "down_seq": "NNSPIQKSQIDNEYLQKLLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393" } ], "site_lbl": "Thr262" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "458", "end_pos": "458" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P48365-1.265.265", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48365-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P48365-1", "length": 746, "uniprot_id": "GYP7_YEAST", "protein_name": "GTPase-activating protein GYP7", "refseq_ac": "NP_010047", "refseq_name": "GTPase-activating protein GYP7", "gene_name": "GYP7", "gene_names_uniprotkb": "GYP7", "gene_names_refseq": "GYP7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KIADVTTKSTNFIDSWLTNN", "down_seq": "PIQKSQIDNEYLQKLLNNEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" }, { "database": "SGD", "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser265" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "458", "end_pos": "458" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P48365-1.262.262", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48365-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P48365-1", "length": 746, "uniprot_id": "GYP7_YEAST", "protein_name": "GTPase-activating protein GYP7", "refseq_ac": "NP_010047", "refseq_name": "GTPase-activating protein GYP7", "gene_name": "GYP7", "gene_names_uniprotkb": "GYP7", "gene_names_refseq": "GYP7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QKQNKLFDSYRNNIFNDLNL", "down_seq": "DELSDTEINNALQRQFPLTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr335" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "458", "end_pos": "458" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P48365-1.339.339", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48365-1.339.339", "start_pos": 339, "end_pos": 339, "uniprot_canonical_ac": "P48365-1", "length": 746, "uniprot_id": "GYP7_YEAST", "protein_name": "GTPase-activating protein GYP7", "refseq_ac": "NP_010047", "refseq_name": "GTPase-activating protein GYP7", "gene_name": "GYP7", "gene_names_uniprotkb": "GYP7", "gene_names_refseq": "GYP7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLFDSYRNNIFNDLNLTDEL", "down_seq": "DTEINNALQRQFPLTEAKWN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48365", "url": "https://www.uniprot.org/uniprotkb/P48365" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P48365", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48365" }, { "database": "SGD", "id": "S000002393", "url": "https://www.yeastgenome.org/locus/S000002393" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser339" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "458", "end_pos": "458" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "198", "end_pos": "198" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P48365-1.335.335", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48510-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "P48510-1", "length": 373, "uniprot_id": "DSK2_YEAST", "protein_name": "Ubiquitin domain-containing protein DSK2", "refseq_ac": "NP_014003", "refseq_name": "ubiquitin domain-containing protein DSK2", "gene_name": "DSK2", "gene_names_uniprotkb": "DSK2; SHE4; YM8021.02", "gene_names_refseq": "DSK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48510", "url": "https://www.uniprot.org/uniprotkb/P48510" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANNATATGAAAGTGATPNMS", "down_seq": "GQSAGFNPLADLTSARYAGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889" }, { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser105" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "357", "end_pos": "357" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48510-1.197.197", "start_pos": 197, "end_pos": 197, "uniprot_canonical_ac": "P48510-1", "length": 373, "uniprot_id": "DSK2_YEAST", "protein_name": "Ubiquitin domain-containing protein DSK2", "refseq_ac": "NP_014003", "refseq_name": "ubiquitin domain-containing protein DSK2", "gene_name": "DSK2", "gene_names_uniprotkb": "DSK2; SHE4; YM8021.02", "gene_names_refseq": "DSK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48510", "url": "https://www.uniprot.org/uniprotkb/P48510" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MIQSNPQLQAMGPQARQMLQ", "down_seq": "PMFRQMLTNPDMIRQSMQFA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser197" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "357", "end_pos": "357" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P48510-1.205.205", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48510-1.205.205", "start_pos": 205, "end_pos": 205, "uniprot_canonical_ac": "P48510-1", "length": 373, "uniprot_id": "DSK2_YEAST", "protein_name": "Ubiquitin domain-containing protein DSK2", "refseq_ac": "NP_014003", "refseq_name": "ubiquitin domain-containing protein DSK2", "gene_name": "DSK2", "gene_names_uniprotkb": "DSK2; SHE4; YM8021.02", "gene_names_refseq": "DSK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48510", "url": "https://www.uniprot.org/uniprotkb/P48510" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QAMGPQARQMLQSPMFRQML", "down_seq": "NPDMIRQSMQFARMMDPNAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889" } ], "site_lbl": "Thr205" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "357", "end_pos": "357" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P48510-1.197.197", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48510-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P48510-1", "length": 373, "uniprot_id": "DSK2_YEAST", "protein_name": "Ubiquitin domain-containing protein DSK2", "refseq_ac": "NP_014003", "refseq_name": "ubiquitin domain-containing protein DSK2", "gene_name": "DSK2", "gene_names_uniprotkb": "DSK2; SHE4; YM8021.02", "gene_names_refseq": "DSK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48510", "url": "https://www.uniprot.org/uniprotkb/P48510" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "LNIHIKSGQDKWEVNVAPES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889" }, { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "357", "end_pos": "357" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48510-1.357.357", "start_pos": 357, "end_pos": 357, "uniprot_canonical_ac": "P48510-1", "length": 373, "uniprot_id": "DSK2_YEAST", "protein_name": "Ubiquitin domain-containing protein DSK2", "refseq_ac": "NP_014003", "refseq_name": "ubiquitin domain-containing protein DSK2", "gene_name": "DSK2", "gene_names_uniprotkb": "DSK2; SHE4; YM8021.02", "gene_names_refseq": "DSK2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48510", "url": "https://www.uniprot.org/uniprotkb/P48510" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RQLNDMGFFDFDRNVAALRR", "down_seq": "GGSVQGALDSLLNGDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48510", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48510" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004889", "url": "https://www.yeastgenome.org/locus/S000004889" } ], "site_lbl": "Ser357" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "105", "end_pos": "105" }, { "start_pos": "197", "end_pos": "197" }, { "start_pos": "205", "end_pos": "205" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "357", "end_pos": "357" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AANKISDNDFQNIGPAPRPP", "down_seq": "SNSQGRTCYNQTQPITKLMS", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser26", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P48562-1.27.27", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.29.29", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANKISDNDFQNIGPAPRPPS", "down_seq": "NSQGRTCYNQTQPITKLMSQ", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser27", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser27" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P48562-1.26.26", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.29.29", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSLPNSYNDNKLRNNSVNSK", "down_seq": "SSGVSSSMVSQRKTSQPPNT", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser286", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser286" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P48562-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P48562-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.287.287", "start_pos": 287, "end_pos": 287, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLPNSYNDNKLRNNSVNSKS", "down_seq": "SGVSSSMVSQRKTSQPPNTK", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser287", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser287" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P48562-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPNSYNDNKLRNNSVNSKSS", "down_seq": "GVSSSMVSQRKTSQPPNTKS", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser288", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser288" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P48562-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.291.291", "start_pos": 291, "end_pos": 291, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SYNDNKLRNNSVNSKSSSGV", "down_seq": "SSMVSQRKTSQPPNTKSPVS", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser291", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YNDNKLRNNSVNSKSSSGVS", "down_seq": "SMVSQRKTSQPPNTKSPVSL", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser292", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.293.293", "start_pos": 293, "end_pos": 293, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDNKLRNNSVNSKSSSGVSS", "down_seq": "MVSQRKTSQPPNTKSPVSLG", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser293", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLRNNSVNSKSSSGVSSSMV", "down_seq": "QRKTSQPPNTKSPVSLGSGS", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser296", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KISDNDFQNIGPAPRPPSSN", "down_seq": "QGRTCYNQTQPITKLMSQLD", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser29", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser29" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P48562-1.26.26", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.27.27", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P48562-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSPVSLGSGSLPPINTKLPT", "down_seq": "QSNIPRHLQNVPNQQYPKMR", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser327", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser327" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.326.326", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.329.329", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.329.329", "start_pos": 329, "end_pos": 329, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PVSLGSGSLPPINTKLPTSQ", "down_seq": "NIPRHLQNVPNQQYPKMRNG", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser329", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.326.326", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.327.327", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FQPQRTAPKPPISAPRAPYP", "down_seq": "NQNATSNTHVQPVAPKNDQS", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser471", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser471" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P48562-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P48562-1.477.477", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P48562-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.491.491", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.477.477", "start_pos": 477, "end_pos": 477, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APKPPISAPRAPYPSNQNAT", "down_seq": "NTHVQPVAPKNDQSTPQTMR", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser477", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P48562" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser477" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P48562-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P48562-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P48562-1.495.495", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" }, { "database": "O-GlcNAc Atlas", "id": "P48562", "url": "https://oglcnac.org/atlas/detail/P48562" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562", "database": "O-GlcNAc Database", "categories": [ "Other" ] } ], "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P48562", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P48562" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P48562-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSRTQLKQYCFELVRCSDRN", "down_seq": "VSSGSSSSLNVSSDSNSKKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P48562-1.139.139", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P48562-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P48562-1.143.143", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P48562-1.144.144", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.139.139", "start_pos": 139, "end_pos": 139, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TQLKQYCFELVRCSDRNSVS", "down_seq": "GSSSSLNVSSDSNSKKSIYI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser139" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P48562-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.143.143", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.144.144", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.141.141", "start_pos": 141, "end_pos": 141, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKQYCFELVRCSDRNSVSSG", "down_seq": "SSSLNVSSDSNSKKSIYIAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser141" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P48562-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.139.139", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.143.143", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.144.144", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KQYCFELVRCSDRNSVSSGS", "down_seq": "SSLNVSSDSNSKKSIYIATK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser142" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P48562-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.139.139", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.143.143", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.144.144", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QYCFELVRCSDRNSVSSGSS", "down_seq": "SLNVSSDSNSKKSIYIATKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P48562-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P48562-1.139.139", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.144.144", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YCFELVRCSDRNSVSSGSSS", "down_seq": "LNVSSDSNSKKSIYIATKTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser144" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P48562-1.136.136", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.139.139", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.141.141", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.143.143", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDLHSWLDAIFAKCPLLSGV", "down_seq": "SPTNFTHKVHVGFDPETGSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P48562-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P48562-1.202.202", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.186.186", "start_pos": 186, "end_pos": 186, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Cla4p Kinase Activity Is Down-Regulated by Fus3p during Yeast Mating.", "journal": "Biomolecules", "date": "2022-04-18", "authors": "Kim Junwon, Rose Mark D", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLHSWLDAIFAKCPLLSGVS", "down_seq": "PTNFTHKVHVGFDPETGSFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186" } ], "site_lbl": "Ser186" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P48562-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.202.202", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P48562-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HSWLDAIFAKCPLLSGVSSP", "down_seq": "NFTHKVHVGFDPETGSFVGM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr188" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P48562-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P48562-1.202.202", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.202.202", "start_pos": 202, "end_pos": 202, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SGVSSPTNFTHKVHVGFDPE", "down_seq": "GSFVGMPTNWEKLLKHSRIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr202" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P48562-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P48562-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P48562-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.204.204", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.204.204", "start_pos": 204, "end_pos": 204, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSSPTNFTHKVHVGFDPETG", "down_seq": "FVGMPTNWEKLLKHSRITGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser204" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P48562-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P48562-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P48562-1.188.188", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.202.202", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GNPTNTLDKPQSGETSSSQK", "down_seq": "LPNSYNDNKLRNNSVNSKSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser267" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P48562-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NTLDKPQSGETSSSQKSLPN", "down_seq": "YNDNKLRNNSVNSKSSSGVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser271" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P48562-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "LSAAANKISDNDFQNIGPAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P48562-1.0.0", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.301.301", "start_pos": 301, "end_pos": 301, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SVNSKSSSGVSSSMVSQRKT", "down_seq": "QPPNTKSPVSLGSGSLPPIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser301" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P48562-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P48562-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.308.308", "start_pos": 308, "end_pos": 308, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGVSSSMVSQRKTSQPPNTK", "down_seq": "PVSLGSGSLPPINTKLPTSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser308" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P48562-1.326.326", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.327.327", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSMVSQRKTSQPPNTKSPV", "down_seq": "LGSGSLPPINTKLPTSQSNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser311" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.291.291", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P48562-1.292.292", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P48562-1.293.293", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P48562-1.296.296", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P48562-1.301.301", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.326.326", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.327.327", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P48562-1.329.329", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.326.326", "start_pos": 326, "end_pos": 326, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TKSPVSLGSGSLPPINTKLP", "down_seq": "SQSNIPRHLQNVPNQQYPKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr326" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P48562-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P48562-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.327.327", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.329.329", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Cla4p Kinase Activity Is Down-Regulated by Fus3p during Yeast Mating.", "journal": "Biomolecules", "date": "2022-04-18", "authors": "Kim Junwon, Rose Mark D", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186" } ] } ], "crossref": [ { "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IPRHLQNVPNQQYPKMRNGH", "down_seq": "PTNGQFPRGPMHPNNSQRSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P48562-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.370.370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.353.353", "start_pos": 353, "end_pos": 353, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RHLQNVPNQQYPKMRNGHSP", "down_seq": "NGQFPRGPMHPNNSQRSLQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr353" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P48562-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P48562-1.367.367", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P48562-1.370.370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.367.367", "start_pos": 367, "end_pos": 367, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RNGHSPTNGQFPRGPMHPNN", "down_seq": "QRSLQQQQQQQQQQKQQHQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser367" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P48562-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P48562-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.370.370", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HSPTNGQFPRGPMHPNNSQR", "down_seq": "LQQQQQQQQQQKQQHQQYPY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser370" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P48562-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P48562-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.367.367", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQQQQQKQQHQQYPYHHQGP", "down_seq": "PSPSPSPSPLNPYRPHHNMI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser396" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P48562-1.398.398", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P48562-1.404.404", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.398.398", "start_pos": 398, "end_pos": 398, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQQQKQQHQQYPYHHQGPSP", "down_seq": "PSPSPSPLNPYRPHHNMINP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser398" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P48562-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P48562-1.404.404", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.404.404", "start_pos": 404, "end_pos": 404, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QHQQYPYHHQGPSPSPSPSP", "down_seq": "PLNPYRPHHNMINPYSKQPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser404" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P48562-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P48562-1.398.398", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Cla4p Kinase Activity Is Down-Regulated by Fus3p during Yeast Mating.", "journal": "Biomolecules", "date": "2022-04-18", "authors": "Kim Junwon, Rose Mark D", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186" } ] } ], "crossref": [ { "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PLNPYRPHHNMINPYSKQPQ", "down_seq": "PLSSQSTQNQAIPRYAQNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "35454186", "url": "https://glygen.org/publication/PubMed/35454186" } ], "site_lbl": "Ser425" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P48562-1.431.431", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P48562-1.445.445", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.431.431", "start_pos": 431, "end_pos": 431, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PHHNMINPYSKQPQSPLSSQ", "down_seq": "TQNQAIPRYAQNSSPTAAHF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser431" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P48562-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P48562-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P48562-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P48562-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.447.447", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SKQPQSPLSSQSTQNQAIPR", "down_seq": "AQNSSPTAAHFQPQRTAPKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Tyr440" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P48562-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P48562-1.431.431", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P48562-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P48562-1.447.447", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.444.444", "start_pos": 444, "end_pos": 444, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QSPLSSQSTQNQAIPRYAQN", "down_seq": "SPTAAHFQPQRTAPKPPISA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser444" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P48562-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P48562-1.431.431", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P48562-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.447.447", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPLSSQSTQNQAIPRYAQNS", "down_seq": "PTAAHFQPQRTAPKPPISAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser445" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P48562-1.431.431", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P48562-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.447.447", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.447.447", "start_pos": 447, "end_pos": 447, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LSSQSTQNQAIPRYAQNSSP", "down_seq": "AAHFQPQRTAPKPPISAPRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr447" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P48562-1.431.431", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P48562-1.440.440", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.445.445", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSNSQGRTCYNQTQPITKLM", "down_seq": "QLDLTSASHLGTSTSKKKSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser46" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.26.26", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P48562-1.27.27", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P48562-1.29.29", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P48562-1.52.52", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TAPKPPISAPRAPYPSNQNA", "down_seq": "SNTHVQPVAPKNDQSTPQTM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr476" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P48562-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.477.477", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P48562-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P48562-1.495.495", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KPPISAPRAPYPSNQNATSN", "down_seq": "HVQPVAPKNDQSTPQTMRQA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr479" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P48562-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.477.477", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P48562-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P48562-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P48562-1.495.495", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.491.491", "start_pos": 491, "end_pos": 491, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNQNATSNTHVQPVAPKNDQ", "down_seq": "TPQTMRQAPKRPDADVAQPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser491" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P48562-1.471.471", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P48562-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P48562-1.477.477", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P48562-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P48562-1.492.492", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.495.495", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.492.492", "start_pos": 492, "end_pos": 492, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NQNATSNTHVQPVAPKNDQS", "down_seq": "PQTMRQAPKRPDADVAQPGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr492" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P48562-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P48562-1.477.477", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P48562-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P48562-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48562-1.495.495", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.495.495", "start_pos": 495, "end_pos": 495, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ATSNTHVQPVAPKNDQSTPQ", "down_seq": "MRQAPKRPDADVAQPGGVAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr495" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P48562-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P48562-1.477.477", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P48562-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P48562-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48562-1.492.492", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RTCYNQTQPITKLMSQLDLT", "down_seq": "ASHLGTSTSKKKSGWVSYKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P48562-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.557.557", "start_pos": 557, "end_pos": 557, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TVNADPSQCFKVIEKAGQGA", "down_seq": "GSVYLAERTHIPTESNMIEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser557" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P48562-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P48562-1.561.561", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.559.559", "start_pos": 559, "end_pos": 559, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NADPSQCFKVIEKAGQGASG", "down_seq": "VYLAERTHIPTESNMIELIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser559" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P48562-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P48562-1.561.561", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "DPSQCFKVIEKAGQGASGSV", "down_seq": "LAERTHIPTESNMIELINND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr561" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P48562-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P48562-1.559.559", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48562-1.727.727", "start_pos": 727, "end_pos": 727, "uniprot_canonical_ac": "P48562-1", "length": 842, "uniprot_id": "CLA4_YEAST", "protein_name": "Serine/threonine-protein kinase CLA4", "refseq_ac": "NP_014101", "refseq_name": "serine/threonine protein kinase CLA4", "gene_name": "CLA4", "gene_names_uniprotkb": "CLA4; N0450", "gene_names_refseq": "CLA4; ERC10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48562", "url": "https://www.uniprot.org/uniprotkb/P48562" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VKITDFGFCARLTDKRSKRA", "down_seq": "MVGTPYWMAPEVVKQREYDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005242", "url": "https://www.yeastgenome.org/locus/S000005242" }, { "database": "iPTMnet", "id": "P48562", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48562" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr727" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "293", "end_pos": "293" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "477", "end_pos": "477" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "136", "end_pos": "136" }, { "start_pos": "139", "end_pos": "139" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "204", "end_pos": "204" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "301", "end_pos": "301" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "398", "end_pos": "398" }, { "start_pos": "404", "end_pos": "404" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "431", "end_pos": "431" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "447", "end_pos": "447" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "727", "end_pos": "727" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48606-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P48606-1", "length": 106, "uniprot_id": "TBCA_YEAST", "protein_name": "Tubulin-specific chaperone A", "refseq_ac": "NP_014908", "refseq_name": "Rbl2p", "gene_name": "RBL2", "gene_names_uniprotkb": "RBL2", "gene_names_refseq": "RBL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YYQQELKDQEAHVAKLKEDK", "down_seq": "VDPYDLKKQEEVLDDTKRLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791" }, { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser42" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "42", "end_pos": "42" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48606-1.90.90", "start_pos": 90, "end_pos": 90, "uniprot_canonical_ac": "P48606-1", "length": 106, "uniprot_id": "TBCA_YEAST", "protein_name": "Tubulin-specific chaperone A", "refseq_ac": "NP_014908", "refseq_name": "Rbl2p", "gene_name": "RBL2", "gene_names_uniprotkb": "RBL2", "gene_names_refseq": "RBL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "REFKEDLEQFLKTYQGTEDV", "down_seq": "DARSAITSAQELLDSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser90" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "42", "end_pos": "42" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P48606-1.94.94", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P48606-1.97.97", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48606-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P48606-1", "length": 106, "uniprot_id": "TBCA_YEAST", "protein_name": "Tubulin-specific chaperone A", "refseq_ac": "NP_014908", "refseq_name": "Rbl2p", "gene_name": "RBL2", "gene_names_uniprotkb": "RBL2", "gene_names_refseq": "RBL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" }, { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" }, { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" }, { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDLEQFLKTYQGTEDVSDAR", "down_seq": "AITSAQELLDSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser94" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "42", "end_pos": "42" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P48606-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P48606-1.97.97", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P48606-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "P48606-1", "length": 106, "uniprot_id": "TBCA_YEAST", "protein_name": "Tubulin-specific chaperone A", "refseq_ac": "NP_014908", "refseq_name": "Rbl2p", "gene_name": "RBL2", "gene_names_uniprotkb": "RBL2", "gene_names_refseq": "RBL2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P48606", "url": "https://www.uniprot.org/uniprotkb/P48606" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EQFLKTYQGTEDVSDARSAI", "down_seq": "SAQELLDSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005791", "url": "https://www.yeastgenome.org/locus/S000005791" }, { "database": "iPTMnet", "id": "P48606", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P48606" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr97" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "42", "end_pos": "42" }, { "start_pos": "90", "end_pos": "90" }, { "start_pos": "94", "end_pos": "94" }, { "start_pos": "97", "end_pos": "97" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P48606-1.90.90", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P48606-1.94.94", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TFFEKKVSDYQKASDMSKSA", "down_seq": "PSKEINFDDDF", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr334", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr334" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P49723-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P49723-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P49723-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P49723-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P49723-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KEIANLPEVKHKAAFIERWI", "down_seq": "NDDSLYAERLVAFAAKEGIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NPKIIEKIITEAVEIEKEYY", "down_seq": "NSLPVEKFGMDLKSIHTYIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P49723-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P49723-1.273.273", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KIIEKIITEAVEIEKEYYSN", "down_seq": "LPVEKFGMDLKSIHTYIEFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser261" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P49723-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P49723-1.273.273", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IEKEYYSNSLPVEKFGMDLK", "down_seq": "IHTYIEFVADGLLQGFGNEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser273" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P49723-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P49723-1.261.261", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.321.321", "start_pos": 321, "end_pos": 321, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FEFMEDVATAGKTTFFEKKV", "down_seq": "DYQKASDMSKSATPSKEINF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser321" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P49723-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P49723-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P49723-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P49723-1.334.334", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P49723-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.327.327", "start_pos": 327, "end_pos": 327, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VATAGKTTFFEKKVSDYQKA", "down_seq": "DMSKSATPSKEINFDDDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser327" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P49723-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P49723-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P49723-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P49723-1.334.334", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P49723-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QKERHDMKEAEKDEILLMEN", "down_seq": "RRFVMFPIKYHEIWAAYKKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.330.330", "start_pos": 330, "end_pos": 330, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGKTTFFEKKVSDYQKASDM", "down_seq": "KSATPSKEINFDDDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser330" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P49723-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P49723-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P49723-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P49723-1.334.334", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P49723-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.332.332", "start_pos": 332, "end_pos": 332, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTTFFEKKVSDYQKASDMSK", "down_seq": "ATPSKEINFDDDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser332" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P49723-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P49723-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P49723-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P49723-1.334.334", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P49723-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FEKKVSDYQKASDMSKSATP", "down_seq": "KEINFDDDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser336" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P49723-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P49723-1.327.327", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P49723-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P49723-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P49723-1.334.334", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FVMFPIKYHEIWAAYKKVEA", "down_seq": "FWTAEEIELAKDTEDFQKLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EEIELAKDTEDFQKLTDDQK", "down_seq": "YIGNLLALSISSDNLVNKYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr80" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P49723-1.81.81", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P49723-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EIELAKDTEDFQKLTDDQKT", "down_seq": "IGNLLALSISSDNLVNKYLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Tyr81" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P49723-1.80.80", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P49723-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P49723-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P49723-1", "length": 345, "uniprot_id": "RIR4_YEAST", "protein_name": "Ribonucleoside-diphosphate reductase small chain 2", "refseq_ac": "NP_011696", "refseq_name": "ribonucleotide-diphosphate reductase subunit RNR4", "gene_name": "RNR4", "gene_names_uniprotkb": "RNR4; CRT3", "gene_names_refseq": "CRT3; PSO3; RNR4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P49723", "url": "https://www.uniprot.org/uniprotkb/P49723" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FQKLTDDQKTYIGNLLALSI", "down_seq": "SDNLVNKYLIENFSAQLQNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003412", "url": "https://www.yeastgenome.org/locus/S000003412" }, { "database": "iPTMnet", "id": "P49723", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P49723" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "334", "end_pos": "334" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "169", "end_pos": "169" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "327", "end_pos": "327" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "80", "end_pos": "80" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P49723-1.80.80", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P49723-1.81.81", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSANSPTGNDPHVFGIPVNA", "down_seq": "PSNMGSPGSPVNVPPPMNPA", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr21", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P50875-1.5.5", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P50875-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTITNSTFAVSLTKNAMEIA", "down_seq": "SSSNGVRGASSSTSNSASNT", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser422", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.423.423", "start_pos": 423, "end_pos": 423, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TITNSTFAVSLTKNAMEIAS", "down_seq": "SSNGVRGASSSTSNSASNTR", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser423", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.424.424", "start_pos": 424, "end_pos": 424, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ITNSTFAVSLTKNAMEIASS", "down_seq": "SNGVRGASSSTSNSASNTRN", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser424", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNSTFAVSLTKNAMEIASSS", "down_seq": "NGVRGASSSTSNSASNTRNN", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser425", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.432.432", "start_pos": 432, "end_pos": 432, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLTKNAMEIASSSSNGVRGA", "down_seq": "SSTSNSASNTRNNSLANGNQ", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser432", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser432" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LTKNAMEIASSSSNGVRGAS", "down_seq": "STSNSASNTRNNSLANGNQV", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser433", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser433" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.434.434", "start_pos": 434, "end_pos": 434, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKNAMEIASSSSNGVRGASS", "down_seq": "TSNSASNTRNNSLANGNQVA", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser434", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser434" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KNAMEIASSSSNGVRGASSS", "down_seq": "SNSASNTRNNSLANGNQVAL", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "T", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr435", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NAMEIASSSSNGVRGASSST", "down_seq": "NSASNTRNNSLANGNQVALA", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser436", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser436" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.438.438", "start_pos": 438, "end_pos": 438, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MEIASSSSNGVRGASSSTSN", "down_seq": "ASNTRNNSLANGNQVALAAA", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser438", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser438" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.440.440", "start_pos": 440, "end_pos": 440, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IASSSSNGVRGASSSTSNSA", "down_seq": "NTRNNSLANGNQVALAAAAA", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser440", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P50875" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser440" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P50875-1.422.422", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P50875-1.423.423", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P50875-1.424.424", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P50875-1.425.425", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P50875-1.446.446", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.579.579", "start_pos": 579, "end_pos": 579, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NLDKPKVKRPRKNAKKSESG", "down_seq": "PAPKKKRMTKKKQSASSTPS", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr579", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr579" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P50875-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P50875-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P50875-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P50875-1.597.597", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.597.597", "start_pos": 597, "end_pos": 597, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SGTPAPKKKRMTKKKQSASS", "down_seq": "PSSTTMS", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr597", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr597" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P50875-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P50875-1.579.579", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P50875-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.596.596", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" }, { "database": "O-GlcNAc Atlas", "id": "P50875", "url": "https://oglcnac.org/atlas/detail/P50875" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875", "database": "O-GlcNAc Database", "categories": [ "Other" ] } ], "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P50875", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P50875" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P50875-1.5.5", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VYDHTNTVDVTPKENKPNLN", "down_seq": "SSSPSNNNSTQDNSKIQQPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser235" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P50875-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P50875-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YDHTNTVDVTPKENKPNLNS", "down_seq": "SSPSNNNSTQDNSKIQQPSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser236" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P50875-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DHTNTVDVTPKENKPNLNSS", "down_seq": "SPSNNNSTQDNSKIQQPSEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser237" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P50875-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HTNTVDVTPKENKPNLNSSS", "down_seq": "PSNNNSTQDNSKIQQPSEPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser238" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P50875-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P50875-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.240.240", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.240.240", "start_pos": 240, "end_pos": 240, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NTVDVTPKENKPNLNSSSSP", "down_seq": "NNNSTQDNSKIQQPSEPNSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser240" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P50875-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P50875-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P50875-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.238.238", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.326.326", "start_pos": 326, "end_pos": 326, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDSIYQQFESEILTLTKRNL", "down_seq": "LSVPLNPYEHRDMLEETAFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser326" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "WDSEKKSFIHEHRAESTREG", "down_seq": "KGVVGHIEERDEFPQHSSNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr370" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.446.446", "start_pos": 446, "end_pos": 446, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NGVRGASSSTSNSASNTRNN", "down_seq": "LANGNQVALAAAAAAAAVGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser446" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P50875-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P50875-1.433.433", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P50875-1.434.434", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P50875-1.435.435", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P50875-1.436.436", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P50875-1.438.438", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P50875-1.440.440", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.497.497", "start_pos": 497, "end_pos": 497, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RLKFIEQWRINKEKRKQQAL", "down_seq": "ANINPTPFNARISMTAPLTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser497" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P50875-1.510.510", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P50875-1.512.512", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P50875-1.516.516", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.510.510", "start_pos": 510, "end_pos": 510, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRKQQALSANINPTPFNARI", "down_seq": "MTAPLTPQQQLLQRQQQALE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser510" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P50875-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.512.512", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P50875-1.516.516", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.512.512", "start_pos": 512, "end_pos": 512, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KQQALSANINPTPFNARISM", "down_seq": "APLTPQQQLLQRQQQALEQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr512" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P50875-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P50875-1.510.510", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.516.516", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.516.516", "start_pos": 516, "end_pos": 516, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LSANINPTPFNARISMTAPL", "down_seq": "PQQQLLQRQQQALEQQQNGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr516" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P50875-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P50875-1.510.510", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P50875-1.512.512", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.545.545", "start_pos": 545, "end_pos": 545, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQQALEQQQNGGAMKNANKR", "down_seq": "GNNATSNNNNNNNNLDKPKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser545" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VPPPMNPAVANVNHPVMRTN", "down_seq": "NSNANEGTRTLTREQIQQLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser54" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P50875-1.56.56", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PPMNPAVANVNHPVMRTNSN", "down_seq": "NANEGTRTLTREQIQQLQQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P50875-1.54.54", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNNNNLDKPKVKRPRKNAKK", "down_seq": "ESGTPAPKKKRMTKKKQSAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser575" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P50875-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.579.579", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P50875-1.593.593", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.577.577", "start_pos": 577, "end_pos": 577, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNNLDKPKVKRPRKNAKKSE", "down_seq": "GTPAPKKKRMTKKKQSASST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser577" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P50875-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P50875-1.579.579", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P50875-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P50875-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P50875-1.597.597", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKSESGTPAPKKKRMTKKKQ", "down_seq": "ASSTPSSTTMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser593" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P50875-1.575.575", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P50875-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P50875-1.579.579", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P50875-1.596.596", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P50875-1.597.597", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.596.596", "start_pos": 596, "end_pos": 596, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESGTPAPKKKRMTKKKQSAS", "down_seq": "TPSSTTMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser596" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P50875-1.577.577", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P50875-1.579.579", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P50875-1.593.593", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P50875-1.597.597", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P50875-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P50875-1", "length": 604, "uniprot_id": "SPT20_YEAST", "protein_name": "SAGA complex subunit SPT20", "refseq_ac": "NP_014493", "refseq_name": "Spt20p", "gene_name": "SPT20", "gene_names_uniprotkb": "SPT20; ADA5", "gene_names_refseq": "ADA5; SPT20", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P50875", "url": "https://www.uniprot.org/uniprotkb/P50875" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSAN", "down_seq": "PTGNDPHVFGIPVNATPSNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005508", "url": "https://www.yeastgenome.org/locus/S000005508" }, { "database": "iPTMnet", "id": "P50875", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P50875" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "597", "end_pos": "597" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "235", "end_pos": "235" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "326", "end_pos": "326" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "434", "end_pos": "434" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "438", "end_pos": "438" }, { "start_pos": "440", "end_pos": "440" }, { "start_pos": "446", "end_pos": "446" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "545", "end_pos": "545" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "577", "end_pos": "577" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "593", "end_pos": "593" }, { "start_pos": "596", "end_pos": "596" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P50875-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P50875-1.21.21", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.110.110", "start_pos": 110, "end_pos": 110, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VIEWAEHHRDSNFPDEDDDD", "down_seq": "RKSAPVDSWDREFLKVDQEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser110" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P52286-1.113.113", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "WAEHHRDSNFPDEDDDDSRK", "down_seq": "APVDSWDREFLKVDQEMLYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P52286-1.110.110", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NIKPLLDAGCKVVAEMIRGR", "down_seq": "PEEIRRTFNIVNDFTPEEEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser162" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P52286-1.177.177", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MIRGRSPEEIRRTFNIVNDF", "down_seq": "PEEEAAIRRENEWAEDR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr177" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P52286-1.162.162", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.39.39", "start_pos": 39, "end_pos": 39, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKKIAERSLLLKNYLNDMHD", "down_seq": "NLQNNSDSESDSDSETNHKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser39" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P52286-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P52286-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P52286-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P52286-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P52286-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MV", "down_seq": "SNVVLVSGEGERFTVDKKIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" } ], "site_lbl": "Thr3" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P52286-1.4.4", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RSLLLKNYLNDMHDSNLQNN", "down_seq": "DSESDSDSETNHKSKDNNNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P52286-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P52286-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P52286-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P52286-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P52286-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLLKNYLNDMHDSNLQNNSD", "down_seq": "ESDSDSETNHKSKDNNNGDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P52286-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P52286-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P52286-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P52286-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P52286-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKNYLNDMHDSNLQNNSDSE", "down_seq": "DSDSETNHKSKDNNNGDDDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P52286-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P52286-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P52286-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P52286-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P52286-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MVT", "down_seq": "NVVLVSGEGERFTVDKKIAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P52286-1.3.3", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NYLNDMHDSNLQNNSDSESD", "down_seq": "DSETNHKSKDNNNGDDDDED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P52286-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P52286-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P52286-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P52286-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P52286-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52286-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P52286-1", "length": 194, "uniprot_id": "SKP1_YEAST", "protein_name": "Suppressor of kinetochore protein 1", "refseq_ac": "NP_010615", "refseq_name": "SCF ubiquitin ligase subunit SKP1", "gene_name": "SKP1", "gene_names_uniprotkb": "SKP1; CBF3D; D9798.14", "gene_names_refseq": "MGO1; SKP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52286", "url": "https://www.uniprot.org/uniprotkb/P52286" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DMHDSNLQNNSDSESDSDSE", "down_seq": "NHKSKDNNNGDDDDEDDDEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002736", "url": "https://www.yeastgenome.org/locus/S000002736" }, { "database": "iPTMnet", "id": "P52286", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52286" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "39", "end_pos": "39" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "55", "end_pos": "55" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P52286-1.39.39", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P52286-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P52286-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P52286-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P52286-1.51.51", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52918-1.447.447", "start_pos": 447, "end_pos": 447, "uniprot_canonical_ac": "P52918-1", "length": 1224, "uniprot_id": "MSN5_YEAST", "protein_name": "Protein MSN5", "refseq_ac": "NP_010622", "refseq_name": "karyopherin MSN5", "gene_name": "MSN5", "gene_names_uniprotkb": "MSN5; D9651.5", "gene_names_refseq": "KAP142; MSN5; STE21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52918", "url": "https://www.uniprot.org/uniprotkb/P52918" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002743", "url": "https://www.yeastgenome.org/locus/S000002743", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ISKKFAEIDFQSKSEFQTFC", "down_seq": "TYRKRIRDIIRLISCVELDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002743", "url": "https://www.yeastgenome.org/locus/S000002743" }, { "database": "iPTMnet", "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser447" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "447", "end_pos": "447" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "835", "end_pos": "835" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52918-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "P52918-1", "length": 1224, "uniprot_id": "MSN5_YEAST", "protein_name": "Protein MSN5", "refseq_ac": "NP_010622", "refseq_name": "karyopherin MSN5", "gene_name": "MSN5", "gene_names_uniprotkb": "MSN5; D9651.5", "gene_names_refseq": "KAP142; MSN5; STE21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52918", "url": "https://www.uniprot.org/uniprotkb/P52918" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "S000002743", "url": "https://www.yeastgenome.org/locus/S000002743", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LNLREPLLLKKQIQNFALFL", "down_seq": "MLKDNVLFTLLEKIITSATM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002743", "url": "https://www.yeastgenome.org/locus/S000002743" }, { "database": "iPTMnet", "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Thr572" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "447", "end_pos": "447" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "835", "end_pos": "835" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P52918-1.835.835", "start_pos": 835, "end_pos": 835, "uniprot_canonical_ac": "P52918-1", "length": 1224, "uniprot_id": "MSN5_YEAST", "protein_name": "Protein MSN5", "refseq_ac": "NP_010622", "refseq_name": "karyopherin MSN5", "gene_name": "MSN5", "gene_names_uniprotkb": "MSN5; D9651.5", "gene_names_refseq": "KAP142; MSN5; STE21", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P52918", "url": "https://www.uniprot.org/uniprotkb/P52918" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002743", "url": "https://www.yeastgenome.org/locus/S000002743", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QSFVKYSTIERFWEAGASNK", "down_seq": "KDEFIDEHMKAMQTLRDFAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002743", "url": "https://www.yeastgenome.org/locus/S000002743" }, { "database": "iPTMnet", "id": "P52918", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P52918" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser835" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "447", "end_pos": "447" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "835", "end_pos": "835" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53043-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P53043-1", "length": 513, "uniprot_id": "PPP5_YEAST", "protein_name": "Serine/threonine-protein phosphatase T", "refseq_ac": "NP_011639", "refseq_name": "protein serine/threonine phosphatase", "gene_name": "PPT1", "gene_names_uniprotkb": "PPT1; G6347", "gene_names_refseq": "PPT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53043", "url": "https://www.uniprot.org/uniprotkb/P53043" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The phosphatase Ppt1 is a dedicated regulator of the molecular chaperone Hsp90.", "journal": "The EMBO journal", "date": "2006-01-25", "authors": "Wandinger Sebastian K, Suhre Michael H, Wegele Harald, Buchner Johannes", "evidence": [ { "database": "UniProtKB", "id": "P53043", "url": "https://www.uniprot.org/uniprotkb/P53043" } ], "reference": [ { "type": "PubMed", "id": "16407978", "url": "https://glygen.org/publication/PubMed/16407978" } ] } ], "crossref": [ { "id": "P53043", "url": "https://www.uniprot.org/uniprotkb/P53043", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16407978", "url": "https://glygen.org/publication/PubMed/16407978", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "LLFYCLKILHPNNFFLNRGN", "down_seq": "ESDNMNKIYGFEDECKYKYS", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Loss of phosphatase activity.", "evidence": [ { "database": "UniProtKB", "id": "P53043", "url": "https://www.uniprot.org/uniprotkb/P53043" }, { "database": "PubMed", "id": "16407978", "url": "https://glygen.org/publication/PubMed/16407978" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "311", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53043-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P53043-1", "length": 513, "uniprot_id": "PPP5_YEAST", "protein_name": "Serine/threonine-protein phosphatase T", "refseq_ac": "NP_011639", "refseq_name": "protein serine/threonine phosphatase", "gene_name": "PPT1", "gene_names_uniprotkb": "PPT1; G6347", "gene_names_refseq": "PPT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53043", "url": "https://www.uniprot.org/uniprotkb/P53043" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53043", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53043" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003355", "url": "https://www.yeastgenome.org/locus/S000003355", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53043", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53043", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MS", "down_seq": "PTAADRAKALERKNEGNVFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003355", "url": "https://www.yeastgenome.org/locus/S000003355" }, { "database": "iPTMnet", "id": "P53043", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53043" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr3" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "311", "end_pos": "311" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "3", "end_pos": "3" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A proteolytic pathway that recognizes ubiquitin as a degradation signal.", "journal": "The Journal of biological chemistry", "date": "1995-07-21", "authors": "Johnson E S, Ma P C, Ota I M, Varshavsky A", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "reference": [ { "type": "PubMed", "id": "7615550", "url": "https://glygen.org/publication/PubMed/7615550" } ] } ], "crossref": [ { "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7615550", "url": "https://glygen.org/publication/PubMed/7615550", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "NETGRVTHGGVLEFIAEEGR", "down_seq": "YLPQWMMETLGIQPGSLLQI", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "D", "comment": "In UFD1-1; grows more slowly.", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" }, { "database": "PubMed", "id": "7615550", "url": "https://glygen.org/publication/PubMed/7615550" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GYVEPDYKALKAQQDKEKKN", "down_seq": "FGKGQVLDPSVLGQGSMSTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser221" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.250.250", "start_pos": 250, "end_pos": 250, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSVLGQGSMSTRIDYAGIAN", "down_seq": "SRNKLSKFVGQGQNISGKAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser250" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53044-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53044-1.266.266", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SVLGQGSMSTRIDYAGIANS", "down_seq": "RNKLSKFVGQGQNISGKAPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser251" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53044-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53044-1.266.266", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GIANSSRNKLSKFVGQGQNI", "down_seq": "GKAPKAEPKQDIKDMKITFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53044-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53044-1.251.251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.321.321", "start_pos": 321, "end_pos": 321, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FGFPMVLPKEDEESAAGSKS", "down_seq": "EQNFQGQGISLRKSNKRKTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser321" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P53044-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53044-1.335.335", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.331.331", "start_pos": 331, "end_pos": 331, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DEESAAGSKSSEQNFQGQGI", "down_seq": "LRKSNKRKTKSDHDSSKSKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser331" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53044-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53044-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53044-1.349.349", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AAGSKSSEQNFQGQGISLRK", "down_seq": "NKRKTKSDHDSSKSKAPKSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser335" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53044-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53044-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53044-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53044-1.354.354", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GISLRKSNKRKTKSDHDSSK", "down_seq": "KAPKSPEVIEID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53044-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53044-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53044-1.354.354", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.354.354", "start_pos": 354, "end_pos": 354, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSNKRKTKSDHDSSKSKAPK", "down_seq": "PEVIEID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser354" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53044-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53044-1.349.349", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53044-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P53044-1", "length": 361, "uniprot_id": "UFD1_YEAST", "protein_name": "Ubiquitin fusion degradation protein 1", "refseq_ac": "NP_011562", "refseq_name": "polyubiquitin-binding protein UFD1", "gene_name": "UFD1", "gene_names_uniprotkb": "UFD1; PIP3", "gene_names_refseq": "UFD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53044", "url": "https://www.uniprot.org/uniprotkb/P53044" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDDANFGGKIFLPPSALSKL", "down_seq": "MLNIRYPMLFKLTANETGRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003280", "url": "https://www.yeastgenome.org/locus/S000003280" }, { "database": "iPTMnet", "id": "P53044", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53044" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser59" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "59", "end_pos": "59" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RASTRSTHATGHSDIKASKL", "down_seq": "QLKKQRARKNRHYSDNEDED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser167" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P53064-1.181.181", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSDLDEDLLALAGADE", "down_seq": "EEEDQVLTTTSAKRAKNNDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53064-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.181.181", "start_pos": 181, "end_pos": 181, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IKASKLSQLKKQRARKNRHY", "down_seq": "DNEDEDDEEDYREEDYKDDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser181" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53064-1.167.167", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NEDEDDEEDYREEDYKDDEG", "down_seq": "EYGDDEEYNPFDRRDTYDKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser203" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P53064-1.219.219", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.219.219", "start_pos": 219, "end_pos": 219, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DDEGSEYGDDEEYNPFDRRD", "down_seq": "YDKREEVEWAEEEDEQDREP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr219" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53064-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.252.252", "start_pos": 252, "end_pos": 252, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDEQDREPEISDFNKLRIGR", "down_seq": "FVAKFCFYPGFEDAVKGCYG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser252" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "DLDEDLLALAGADESEEEDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P53064-1.17.17", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEEDQVLTTTSAKRAKNNDQ", "down_seq": "LSKKRRIEVGSVEDDDEEDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser38" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LTDKTTDEVVRHRMQFNKKL", "down_seq": "GTNAVLEKTVLREKLQYAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser393" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P53064-1.410.410", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KKLSGTNAVLEKTVLREKLQ", "down_seq": "AKETNNEKDIAKYSAQLRNF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr410" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53064-1.393.393", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNEKDIAKYSAQLRNFEKRM", "down_seq": "VYEKHHENDQSDIKKLGELT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser435" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.477.477", "start_pos": 477, "end_pos": 477, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNRKLNMSNIRNAEHVKKED", "down_seq": "NNFDSKSDPFSRLKTRTKVY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser477" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RRIEVGSVEDDDEEDDYNPY", "down_seq": "VGNADYGSEEEEEANPFPLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser63" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P53064-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53064-1.71.71", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SVEDDDEEDDYNPYSVGNAD", "down_seq": "GSEEEEEANPFPLEGKYKDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "Phosphotyrosine", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr69" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53064-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53064-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53064-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDDDEEDDYNPYSVGNADYG", "down_seq": "EEEEEANPFPLEGKYKDESD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser71" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53064-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53064-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53064-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53064-1.90.90", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "NADYGSEEEEEANPFPLEGK", "down_seq": "KDESDREHLESLPEMERETL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr86" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53064-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53064-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53064-1.90.90", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53064-1.90.90", "start_pos": 90, "end_pos": 90, "uniprot_canonical_ac": "P53064-1", "length": 558, "uniprot_id": "RTF1_YEAST", "protein_name": "RNA polymerase-associated protein RTF1", "refseq_ac": "NP_011270", "refseq_name": "RNA polymerase-associated protein", "gene_name": "RTF1", "gene_names_uniprotkb": "RTF1; CSL3; HRA458", "gene_names_refseq": "CSL3; RTF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53064", "url": "https://www.uniprot.org/uniprotkb/P53064" }, { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSEEEEEANPFPLEGKYKDE", "down_seq": "DREHLESLPEMERETLLFER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53064", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53064" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003213", "url": "https://www.yeastgenome.org/locus/S000003213" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser90" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "477", "end_pos": "477" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "90", "end_pos": "90" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53064-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53064-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53068-1.94.94", "start_pos": 94, "end_pos": 94, "uniprot_canonical_ac": "P53068-1", "length": 250, "uniprot_id": "APC10_YEAST", "protein_name": "Anaphase-promoting complex subunit DOC1", "refseq_ac": "NP_011274", "refseq_name": "anaphase promoting complex subunit DOC1", "gene_name": "DOC1", "gene_names_uniprotkb": "DOC1; APC10; HRC283", "gene_names_refseq": "APC10; DOC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53068", "url": "https://www.uniprot.org/uniprotkb/P53068" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A novel yeast screen for mitotic arrest mutants identifies DOC1, a new gene involved in cyclin proteolysis.", "journal": "Molecular biology of the cell", "date": "1997-10", "authors": "Hwang L H, Murray A W", "evidence": [ { "database": "UniProtKB", "id": "P53068", "url": "https://www.uniprot.org/uniprotkb/P53068" } ], "reference": [ { "type": "PubMed", "id": "9348530", "url": "https://glygen.org/publication/PubMed/9348530" } ] } ], "crossref": [ { "id": "P53068", "url": "https://www.uniprot.org/uniprotkb/P53068", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9348530", "url": "https://glygen.org/publication/PubMed/9348530", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EILDSARMINVTHLALWKPS", "down_seq": "FKLGNPVDFALDDNYDTFWQ", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "F", "comment": "In DOC1-1; G2/M cell cycle arrest at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P53068", "url": "https://www.uniprot.org/uniprotkb/P53068" }, { "database": "PubMed", "id": "9348530", "url": "https://glygen.org/publication/PubMed/9348530" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "160", "end_pos": "160" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53068-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "P53068-1", "length": 250, "uniprot_id": "APC10_YEAST", "protein_name": "Anaphase-promoting complex subunit DOC1", "refseq_ac": "NP_011274", "refseq_name": "anaphase promoting complex subunit DOC1", "gene_name": "DOC1", "gene_names_uniprotkb": "DOC1; APC10; HRC283", "gene_names_refseq": "APC10; DOC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53068", "url": "https://www.uniprot.org/uniprotkb/P53068" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53068", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53068" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003209", "url": "https://www.yeastgenome.org/locus/S000003209", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53068", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53068", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FSMIADESYAPSLVKVYAGH", "down_seq": "PSDARFYKMLEVRNVNGWVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003209", "url": "https://www.yeastgenome.org/locus/S000003209" }, { "database": "iPTMnet", "id": "P53068", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53068" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser160" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "94", "end_pos": "94" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "160", "end_pos": "160" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P53131", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53131" }, { "database": "O-GlcNAc Atlas", "id": "P53131", "url": "https://oglcnac.org/atlas/detail/P53131" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53131", "url": "https://oglcnac.org/atlas/detail/P53131", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RHHTSAEEAQKLEDGKINPF", "down_seq": "GREFTPKYVDILKIRRELPV", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "T", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr75", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53131", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53131" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P53131-1.80.80", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P53131", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53131" }, { "database": "O-GlcNAc Atlas", "id": "P53131", "url": "https://oglcnac.org/atlas/detail/P53131" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53131", "url": "https://oglcnac.org/atlas/detail/P53131", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "AEEAQKLEDGKINPFTGREF", "down_seq": "PKYVDILKIRRELPVHAQRD", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "T", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr80", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53131", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53131" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53131-1.75.75", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "P53131", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53131" }, { "database": "O-GlcNAc Atlas", "id": "P53131", "url": "https://oglcnac.org/atlas/detail/P53131" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53131", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53131", "database": "O-GlcNAc Database", "categories": [ "Other" ] } ], "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53131", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53131" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P53131-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53131-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53131-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53131-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Prp43: An RNA helicase-like factor involved in spliceosome disassembly.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1997-10-28", "authors": "Arenas J E, Abelson J N", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "reference": [ { "type": "PubMed", "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317" } ] } ], "crossref": [ { "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "YSIRFENKTSNKTILKYMTD", "down_seq": "MLLREAMEDHDLSRYSCIIL", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "In PRP43-DN1; dominant-negative phenotype.", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "PubMed", "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Prp43: An RNA helicase-like factor involved in spliceosome disassembly.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1997-10-28", "authors": "Arenas J E, Abelson J N", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "reference": [ { "type": "PubMed", "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LMGLLKQVVKRRPDLKIIIM", "down_seq": "ATLDAEKFQRYFNDAPLLAV", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "L", "comment": "In PRP43-DN2; dominant-negative phenotype.", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "PubMed", "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser247" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53131-1.249.249", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.395.395", "start_pos": 395, "end_pos": 395, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Prp43: An RNA helicase-like factor involved in spliceosome disassembly.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1997-10-28", "authors": "Arenas J E, Abelson J N", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "reference": [ { "type": "PubMed", "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317" } ] } ], "crossref": [ { "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "STNIAETSLTIDGIVYVVDP", "down_seq": "FSKQKVYNPRIRVESLLVSP", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "E", "comment": "In PRP43-1; temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "PubMed", "id": "9342317", "url": "https://glygen.org/publication/PubMed/9342317" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P53131-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53131-1.414.414", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MPHLENTQVACTQPRRVAAM", "down_seq": "VAQRVAEEMDVKLGEEVGYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser155" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MGSKRRFSSEHPDPVE", "down_seq": "SIPEQAAEIAEELSKQHPLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr17" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53131-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53131-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53131-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53131-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MGSKRRFSSEHPDPVET", "down_seq": "IPEQAAEIAEELSKQHPLPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser18" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53131-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53131-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53131-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53131-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53131-1.38.38", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GLLKQVVKRRPDLKIIIMSA", "down_seq": "LDAEKFQRYFNDAPLLAVPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr249" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53131-1.247.247", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SIPEQAAEIAEELSKQHPLP", "down_seq": "EEPLVHHDAGEFKGLQRHHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser38" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53131-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YVVDPGFSKQKVYNPRIRVE", "down_seq": "LLVSPISKASAQQRAGRAGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser410" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53131-1.395.395", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53131-1.414.414", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.414.414", "start_pos": 414, "end_pos": 414, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PGFSKQKVYNPRIRVESLLV", "down_seq": "PISKASAQQRAGRAGRTRPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser414" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53131-1.395.395", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53131-1.410.410", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.460.460", "start_pos": 460, "end_pos": 460, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YTEEAFQKELIEQSYPEILR", "down_seq": "NLSSTVLELKKLGIDDLVHF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser460" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Mol. Cell. Proteomics", "date": "2005", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MGSKRRF", "down_seq": "SEHPDPVETSIPEQAAEIAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser8" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53131-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53131-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53131-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53131-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53131-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P53131-1", "length": 767, "uniprot_id": "PRP43_YEAST", "protein_name": "Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43", "refseq_ac": "NP_011395", "refseq_name": "DEAH-box ATP-dependent RNA helicase PRP43", "gene_name": "PRP43", "gene_names_uniprotkb": "PRP43", "gene_names_refseq": "PRP43", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MGSKRRFS", "down_seq": "EHPDPVETSIPEQAAEIAEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53131", "url": "https://www.uniprot.org/uniprotkb/P53131" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53131", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53131" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003088", "url": "https://www.yeastgenome.org/locus/S000003088" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "75", "end_pos": "75" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "194", "end_pos": "194" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "395", "end_pos": "395" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "155", "end_pos": "155" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "460", "end_pos": "460" }, { "start_pos": "8", "end_pos": "8" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53131-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53131-1.8.8", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53131-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53131-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification and functional analysis of the essential and regulatory light chains of the only type II myosin Myo1p in Saccharomyces cerevisiae.", "journal": "The Journal of cell biology", "date": "2004-06-21", "authors": "Luo Jianying, Vallen Elizabeth A, Dravis Christopher, Tcheperegine Serguei E, Drees Becky, Bi Erfei", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "reference": [ { "type": "PubMed", "id": "15210731", "url": "https://glygen.org/publication/PubMed/15210731" } ] } ], "crossref": [ { "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15210731", "url": "https://glygen.org/publication/PubMed/15210731", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "DKESTGKVSVGDLRYMLTGL", "down_seq": "EKLTDAEVDELLKGVEVDSN", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "In MLC1-11; abolishes interaction with MYO2 and IQG1 and reduces interaction with MYO1. Leads to mislocalization of IQG1 and a severe defect in cytokinesis.", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" }, { "database": "PubMed", "id": "15210731", "url": "https://glygen.org/publication/PubMed/15210731" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P53141-1.133.133", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification and functional analysis of the essential and regulatory light chains of the only type II myosin Myo1p in Saccharomyces cerevisiae.", "journal": "The Journal of cell biology", "date": "2004-06-21", "authors": "Luo Jianying, Vallen Elizabeth A, Dravis Christopher, Tcheperegine Serguei E, Drees Becky, Bi Erfei", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "reference": [ { "type": "PubMed", "id": "15210731", "url": "https://glygen.org/publication/PubMed/15210731" } ] } ], "crossref": [ { "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15210731", "url": "https://glygen.org/publication/PubMed/15210731", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "EKLTDAEVDELLKGVEVDSN", "down_seq": "EIDYKKFIEDVLRQ", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "E", "comment": "In MLC1-93; reduces interaction with MYO1, but does not cause any defect in cytokinesis.", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" }, { "database": "PubMed", "id": "15210731", "url": "https://glygen.org/publication/PubMed/15210731" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53141-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53141-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mlc1p promotes septum closure during cytokinesis via the IQ motifs of the vesicle motor Myo2p.", "journal": "The EMBO journal", "date": "2002-12-02", "authors": "Wagner Wolfgang, Bielli Pamela, Wacha Stefan, Ragnini-Wilson Antonella", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "reference": [ { "type": "PubMed", "id": "12456647", "url": "https://glygen.org/publication/PubMed/12456647" } ] } ], "crossref": [ { "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12456647", "url": "https://glygen.org/publication/PubMed/12456647", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "VDELLKGVEVDSNGEIDYKK", "down_seq": "IEDVLRQ", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "In MLC1-5; causes a defect in septum formation.", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" }, { "database": "PubMed", "id": "12456647", "url": "https://glygen.org/publication/PubMed/12456647" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53141-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53141-1.135.135", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.93.93", "start_pos": 93, "end_pos": 93, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mlc1p promotes septum closure during cytokinesis via the IQ motifs of the vesicle motor Myo2p.", "journal": "The EMBO journal", "date": "2002-12-02", "authors": "Wagner Wolfgang, Bielli Pamela, Wacha Stefan, Ragnini-Wilson Antonella", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "reference": [ { "type": "PubMed", "id": "12456647", "url": "https://glygen.org/publication/PubMed/12456647" } ] } ], "crossref": [ { "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12456647", "url": "https://glygen.org/publication/PubMed/12456647", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "KELDATTKAKTEDFVKAFQV", "down_seq": "DKESTGKVSVGDLRYMLTGL", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "In MLC1-1; causes a defect in septum formation.", "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" }, { "database": "PubMed", "id": "12456647", "url": "https://glygen.org/publication/PubMed/12456647" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53141-1.83.83", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LGEKLTDAEVDELLKGVEVD", "down_seq": "NGEIDYKKFIEDVLRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074" }, { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser133" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53141-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53141-1.135.135", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53141-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANKDIFTLFDKKGQGAIAKD", "down_seq": "LGDYLRAIGYNPTNQLVQDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074" }, { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRAIGYNPTNQLVQDIINAD", "down_seq": "SLRDASSLTLDQITGLIEVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074" }, { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P53141-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53141-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NPTNQLVQDIINADSSLRDA", "down_seq": "SLTLDQITGLIEVNEKELDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074" }, { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53141-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53141-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PTNQLVQDIINADSSLRDAS", "down_seq": "LTLDQITGLIEVNEKELDAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074" }, { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser58" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53141-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53141-1.57.57", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53141-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "P53141-1", "length": 149, "uniprot_id": "MLC1_YEAST", "protein_name": "Myosin light chain 1", "refseq_ac": "NP_011409", "refseq_name": "Mlc1p", "gene_name": "MLC1", "gene_names_uniprotkb": "MLC1; G3080", "gene_names_refseq": "MLC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53141", "url": "https://www.uniprot.org/uniprotkb/P53141" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QITGLIEVNEKELDATTKAK", "down_seq": "EDFVKAFQVFDKESTGKVSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003074", "url": "https://www.yeastgenome.org/locus/S000003074" }, { "database": "iPTMnet", "id": "P53141", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53141" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr83" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "93", "end_pos": "93" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P53141-1.93.93", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53233-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P53233-1", "length": 369, "uniprot_id": "FMP48_YEAST", "protein_name": "Probable serine/threonine-protein kinase FMP48", "refseq_ac": "NP_011566", "refseq_name": "protein kinase FMP48", "gene_name": "FMP48", "gene_names_uniprotkb": "FMP48", "gene_names_refseq": "FMP48", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53233", "url": "https://www.uniprot.org/uniprotkb/P53233" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003284", "url": "https://www.yeastgenome.org/locus/S000003284", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YCECGDLYDFLDIAKSQGSP", "down_seq": "SPSLIQIDMQKIIKQLCSAI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003284", "url": "https://www.yeastgenome.org/locus/S000003284" } ], "site_lbl": "Ser101" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53233-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "P53233-1", "length": 369, "uniprot_id": "FMP48_YEAST", "protein_name": "Probable serine/threonine-protein kinase FMP48", "refseq_ac": "NP_011566", "refseq_name": "protein kinase FMP48", "gene_name": "FMP48", "gene_names_uniprotkb": "FMP48", "gene_names_refseq": "FMP48", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53233", "url": "https://www.uniprot.org/uniprotkb/P53233" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003284", "url": "https://www.yeastgenome.org/locus/S000003284", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPKSNDFQIGTDNYRAPETF", "down_seq": "GRVSNSCFKKNFDRSSAPLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003284", "url": "https://www.yeastgenome.org/locus/S000003284" } ], "site_lbl": "Ser178" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53233-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P53233-1", "length": 369, "uniprot_id": "FMP48_YEAST", "protein_name": "Probable serine/threonine-protein kinase FMP48", "refseq_ac": "NP_011566", "refseq_name": "protein kinase FMP48", "gene_name": "FMP48", "gene_names_uniprotkb": "FMP48", "gene_names_refseq": "FMP48", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53233", "url": "https://www.uniprot.org/uniprotkb/P53233" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003284", "url": "https://www.yeastgenome.org/locus/S000003284", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MYTKLR", "down_seq": "IQSGTFSTVYKAWSTTHNRY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53233", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53233" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003284", "url": "https://www.yeastgenome.org/locus/S000003284" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "178", "end_pos": "178" }, { "start_pos": "7", "end_pos": "7" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.163.163", "start_pos": 163, "end_pos": 163, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NAIRSKCFAMDISNNTANTA", "down_seq": "QQLSLDPKQRSKQILSNLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser163" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.16.16", "start_pos": 16, "end_pos": 16, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MQQDDDFQNFVATLE", "down_seq": "FKDLKSGISGSRIKKLTTYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser16" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQLSLDPKQRSKQILSNLKK", "down_seq": "PPLNLNISLPTDLTSTDPAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser184" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YGSRRERERERERYNSRRNR", "down_seq": "RSPPAPFSQPSTGRKDRYPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser263" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53617-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53617-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53617-1.274.274", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRRERERERERYNSRRNRSR", "down_seq": "PPAPFSQPSTGRKDRYPSVA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser265" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53617-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53617-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53617-1.274.274", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RERERYNSRRNRSRSPPAPF", "down_seq": "QPSTGRKDRYPSVAQDQYSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" } ], "site_lbl": "Ser271" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53617-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53617-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53617-1.274.274", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.274.274", "start_pos": 274, "end_pos": 274, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ERYNSRRNRSRSPPAPFSQP", "down_seq": "TGRKDRYPSVAQDQYSIGAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" } ], "site_lbl": "Ser274" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53617-1.263.263", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53617-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53617-1.271.271", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53617-1.501.501", "start_pos": 501, "end_pos": 501, "uniprot_canonical_ac": "P53617-1", "length": 575, "uniprot_id": "NRD1_YEAST", "protein_name": "Protein NRD1", "refseq_ac": "NP_014148", "refseq_name": "Nrd1 complex RNA-binding subunit", "gene_name": "NRD1", "gene_names_uniprotkb": "NRD1; N0868", "gene_names_refseq": "NRD1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53617", "url": "https://www.uniprot.org/uniprotkb/P53617" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGRNGPRSGKPNKSGSISSI", "down_seq": "PVPYGNAPLASPPPQQYVQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005195", "url": "https://www.yeastgenome.org/locus/S000005195" }, { "database": "iPTMnet", "id": "P53617", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53617" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser501" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "163", "end_pos": "163" }, { "start_pos": "16", "end_pos": "16" }, { "start_pos": "184", "end_pos": "184" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "501", "end_pos": "501" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.131.133", "start_pos": 131, "end_pos": 133, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "EDE", "start_aa": "E", "up_seq": "HGDEKDLANNDDFISLSASS", "down_seq": "QAEQEEEREKQELEIKKEKQ", "mutagenesis": [ { "sequence_org": "EDE", "sequence_mut": "AAA", "comment": "In TRF4-131; slow growth.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53632-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53632-1.140.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.140.142", "start_pos": 140, "end_pos": 142, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "ERE", "start_aa": "E", "up_seq": "NDDFISLSASSEDEQAEQEE", "down_seq": "KQELEIKKEKQKEILNTDYP", "mutagenesis": [ { "sequence_org": "ERE", "sequence_mut": "AAA", "comment": "In TRF4-140; slow growth.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53632-1.130.130", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53632-1.131.133", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.182.185", "start_pos": 182, "end_pos": 185, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "EIKD", "start_aa": "E", "up_seq": "PWILNHDHSKQKEISDWLTF", "down_seq": "FVAYISPSREEIEIRNQTIS", "mutagenesis": [ { "sequence_org": "EIKD", "sequence_mut": "AIAA", "comment": "In TRF4-182; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P53632-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53632-1.195.198", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "EISDWLTFEIKDFVAYISPS", "down_seq": "EEIEIRNQTISTIREAVKQL", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "In TRF4-194; lethal; when associated with A-195; A-196 and A-198.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53632-1.182.185", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53632-1.195.198", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.195.198", "start_pos": 195, "end_pos": 198, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "EEIE", "start_aa": "E", "up_seq": "ISDWLTFEIKDFVAYISPSR", "down_seq": "IRNQTISTIREAVKQLWPDA", "mutagenesis": [ { "sequence_org": "EEIE", "sequence_mut": "AIAA", "comment": "In TRF4-194; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53632-1.182.185", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53632-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53632-1.217.219", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.217.219", "start_pos": 217, "end_pos": 219, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "DAD", "start_aa": "D", "up_seq": "IEIRNQTISTIREAVKQLWP", "down_seq": "LHVFGSYSTDLYLPGSDIDC", "mutagenesis": [ { "sequence_org": "DAD", "sequence_mut": "AAA", "comment": "In TRF4-217; slow growth.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53632-1.195.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53632-1.224.225", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53632-1.236.238", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.224.225", "start_pos": 224, "end_pos": 225, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "GS", "start_aa": "G", "up_seq": "ISTIREAVKQLWPDADLHVF", "down_seq": "YSTDLYLPGSDIDCVVTSEL", "mutagenesis": [ { "sequence_org": "GS", "sequence_mut": "AA", "comment": "In TRF4-224; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53632-1.217.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53632-1.236.238", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.236.238", "start_pos": 236, "end_pos": 238, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Nuclear RNA surveillance in Saccharomyces cerevisiae: Trf4p-dependent polyadenylation of nascent hypomethylated tRNA and an aberrant form of 5S rRNA.", "journal": "RNA (New York, N.Y.)", "date": "2006-03", "authors": "Kadaba Sujatha, Wang Xuying, Anderson James T", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "16431988", "url": "https://glygen.org/publication/PubMed/16431988" } ] }, { "title": "Pol kappa: A DNA polymerase required for sister chromatid cohesion.", "journal": "Science (New York, N.Y.)", "date": "2000", "authors": "Wang Z, Castano IB, De Las Penas A, Adams C, Christman MF", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "10926539", "url": "https://glygen.org/publication/PubMed/10926539" } ] }, { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16431988", "url": "https://glygen.org/publication/PubMed/16431988", "database": "PubMed", "categories": [ "Other" ] }, { "id": "10926539", "url": "https://glygen.org/publication/PubMed/10926539", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "DID", "start_aa": "D", "up_seq": "PDADLHVFGSYSTDLYLPGS", "down_seq": "CVVTSELGGKESRNNLYSLA", "mutagenesis": [ { "sequence_org": "DID", "sequence_mut": "AIA", "comment": "In TRF4-236; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "16431988", "url": "https://glygen.org/publication/PubMed/16431988" }, { "database": "PubMed", "id": "10926539", "url": "https://glygen.org/publication/PubMed/10926539" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53632-1.217.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53632-1.224.225", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.275.277", "start_pos": 275, "end_pos": 277, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KAR", "start_aa": "K", "up_seq": "YSLASHLKKKNLATEVEVVA", "down_seq": "VPIIKFVEPHSGIHIDVSFE", "mutagenesis": [ { "sequence_org": "KAR", "sequence_mut": "AAA", "comment": "In TRF4-275; temperature sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P53632-1.282.282", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53632-1.285.285", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.282.282", "start_pos": 282, "end_pos": 282, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "KKKNLATEVEVVAKARVPII", "down_seq": "FVEPHSGIHIDVSFERTNGI", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "In TRF4-282; lethal; when associated with A-285.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53632-1.275.277", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53632-1.285.285", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.285.285", "start_pos": 285, "end_pos": 285, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "NLATEVEVVAKARVPIIKFV", "down_seq": "PHSGIHIDVSFERTNGIEAA", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "In TRF4-282; lethal; when associated with A-282.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53632-1.275.277", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53632-1.282.282", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.309.310", "start_pos": 309, "end_pos": 310, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "RE", "start_aa": "R", "up_seq": "GIHIDVSFERTNGIEAAKLI", "down_seq": "WLDDTPGLRELVLIVKQFLH", "mutagenesis": [ { "sequence_org": "RE", "sequence_mut": "AA", "comment": "In TRF4-309; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.332.333", "start_pos": 332, "end_pos": 333, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "RR", "start_aa": "R", "up_seq": "LDDTPGLRELVLIVKQFLHA", "down_seq": "LNNVHTGGLGGFSIICLVFS", "mutagenesis": [ { "sequence_org": "RR", "sequence_mut": "AA", "comment": "In TRF4-332; temperature sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.378.378", "start_pos": 378, "end_pos": 378, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "HPRIITNEIDPKDNLGVLLI", "down_seq": "FFELYGKNFGYDDVALGSSD", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "In TRF4-378; lethal; when associated with A-381.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53632-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53632-1.381.381", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.381.381", "start_pos": 381, "end_pos": 381, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "IITNEIDPKDNLGVLLIEFF", "down_seq": "LYGKNFGYDDVALGSSDGYP", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "In TRF4-378; lethal; when associated with A-378.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53632-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53632-1.378.378", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "PKSTWSAIQPIKNPFSLAIQ", "down_seq": "PGDESNNISRGSFNIRDIKK", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "In TRF4-425; lethal; when associated with A-428 and A-429.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53632-1.428.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53632-1.444.445", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.428.429", "start_pos": 428, "end_pos": 429, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "DE", "start_aa": "D", "up_seq": "TWSAIQPIKNPFSLAIQDPG", "down_seq": "SNNISRGSFNIRDIKKAFAG", "mutagenesis": [ { "sequence_org": "DE", "sequence_mut": "AA", "comment": "In TRF4-425; lethal; when associated with A-425.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53632-1.425.425", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53632-1.444.445", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.444.445", "start_pos": 444, "end_pos": 445, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KK", "start_aa": "K", "up_seq": "QDPGDESNNISRGSFNIRDI", "down_seq": "AFAGAFDLLTNRCFELHSAT", "mutagenesis": [ { "sequence_org": "KK", "sequence_mut": "AA", "comment": "In TRF4-444; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53632-1.425.425", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53632-1.428.429", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.467.469", "start_pos": 467, "end_pos": 469, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KDR", "start_aa": "K", "up_seq": "FAGAFDLLTNRCFELHSATF", "down_seq": "LGKSILGNVIKYRGKARDFK", "mutagenesis": [ { "sequence_org": "KDR", "sequence_mut": "AAA", "comment": "In TRF4-467; temperature sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P53632-1.486.487", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.486.487", "start_pos": 486, "end_pos": 487, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "RD", "start_aa": "R", "up_seq": "FKDRLGKSILGNVIKYRGKA", "down_seq": "FKDERGLVLNKAIIENENYH", "mutagenesis": [ { "sequence_org": "RD", "sequence_mut": "AA", "comment": "In TRF4-486; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53632-1.467.469", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53632-1.490.492", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53632-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53632-1.504.504", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.490.492", "start_pos": 490, "end_pos": 492, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "DER", "start_aa": "D", "up_seq": "LGKSILGNVIKYRGKARDFK", "down_seq": "GLVLNKAIIENENYHKKRSR", "mutagenesis": [ { "sequence_org": "DER", "sequence_mut": "AAA", "comment": "In TRF4-486; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53632-1.486.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53632-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53632-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53632-1.508.510", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.502.502", "start_pos": 502, "end_pos": 502, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "RGKARDFKDERGLVLNKAII", "down_seq": "NENYHKKRSRIIHDEDFAED", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "In TRF4-502; lethal; when associated with A-504.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53632-1.486.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53632-1.490.492", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53632-1.504.504", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53632-1.508.510", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "KARDFKDERGLVLNKAIIEN", "down_seq": "NYHKKRSRIIHDEDFAEDTV", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "In TRF4-502; lethal; when associated with A-502.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53632-1.486.487", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53632-1.490.492", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53632-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53632-1.508.510", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.508.510", "start_pos": 508, "end_pos": 510, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KKR", "start_aa": "K", "up_seq": "FKDERGLVLNKAIIENENYH", "down_seq": "SRIIHDEDFAEDTVTSTATA", "mutagenesis": [ { "sequence_org": "KKR", "sequence_mut": "AAA", "comment": "In TRF4-508; lethal.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53632-1.490.492", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53632-1.502.502", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53632-1.504.504", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.559.560", "start_pos": 559, "end_pos": 560, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KR", "start_aa": "K", "up_seq": "ITNPPAKKAKIEEKPESEPA", "down_seq": "NSGETYITVSSEDDDEDGYN", "mutagenesis": [ { "sequence_org": "KR", "sequence_mut": "AA", "comment": "In TRF4-559; slow growth.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "upstream", "id": "P53632-1.560.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53632-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53632-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53632-1.572.574", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.560.560", "start_pos": 560, "end_pos": 560, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "TNPPAKKAKIEEKPESEPAK", "down_seq": "NSGETYITVSSEDDDEDGYN", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "In TRF4-559; slow growth; when associated with A-559.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 0, "direction": "downstream", "id": "P53632-1.559.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53632-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53632-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53632-1.572.574", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53632-1.572.574", "start_pos": 572, "end_pos": 574, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure/function analysis of the Saccharomyces cerevisiae Trf4/Pol sigma DNA polymerase.", "journal": "Genetics", "date": "2002-02", "authors": "Wang Zhenghe, Casta\u00f1o Irene B, Adams Carrie, Vu Clemence, Fitzhugh David, Christman Michael F", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "reference": [ { "type": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "crossref": [ { "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "EDD", "start_aa": "E", "up_seq": "KPESEPAKRNSGETYITVSS", "down_seq": "DEDGYNPYTL", "mutagenesis": [ { "sequence_org": "EDD", "sequence_mut": "AAA", "comment": "In TRF4-572; slow growth.", "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" }, { "database": "PubMed", "id": "11861546", "url": "https://glygen.org/publication/PubMed/11861546" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53632-1.559.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53632-1.560.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53632-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53632-1.571.571", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.107.107", "start_pos": 107, "end_pos": 107, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DGHFDNPTDIPSTTEESKTP", "down_seq": "LAVHGDEKDLANNDDFISLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475" }, { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser107" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VHGDEKDLANNDDFISLSAS", "down_seq": "EDEQAEQEEEREKQELEIKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser130" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53632-1.131.133", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53632-1.140.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.363.363", "start_pos": 363, "end_pos": 363, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GGFSIICLVFSFLHMHPRII", "down_seq": "NEIDPKDNLGVLLIEFFELY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475" }, { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr363" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P53632-1.378.378", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53632-1.381.381", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.570.570", "start_pos": 570, "end_pos": 570, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEKPESEPAKRNSGETYITV", "down_seq": "SEDDDEDGYNPYTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser570" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53632-1.559.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53632-1.560.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53632-1.571.571", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53632-1.572.574", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.571.571", "start_pos": 571, "end_pos": 571, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKPESEPAKRNSGETYITVS", "down_seq": "EDDDEDGYNPYTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser571" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53632-1.559.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53632-1.560.560", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53632-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53632-1.572.574", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNKLPKDHVTADGILVLEHK", "down_seq": "DDDEGFDVYDGHFDNPTDIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475" }, { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P53632-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53632-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P53632-1", "length": 584, "uniprot_id": "PAP2_YEAST", "protein_name": "Poly(A) RNA polymerase protein 2", "refseq_ac": "NP_014526", "refseq_name": "non-canonical poly(A) polymerase PAP2", "gene_name": "PAP2", "gene_names_uniprotkb": "PAP2; HRC584; O0716; TRF4", "gene_names_refseq": "PAP2; TRF4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53632", "url": "https://www.uniprot.org/uniprotkb/P53632" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "TADGILVLEHKSDDDEGFDV", "down_seq": "DGHFDNPTDIPSTTEESKTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005475", "url": "https://www.yeastgenome.org/locus/S000005475" }, { "database": "iPTMnet", "id": "P53632", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53632" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr86" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "131", "end_pos": "133" }, { "start_pos": "140", "end_pos": "142" }, { "start_pos": "182", "end_pos": "185" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "195", "end_pos": "198" }, { "start_pos": "217", "end_pos": "219" }, { "start_pos": "224", "end_pos": "225" }, { "start_pos": "236", "end_pos": "238" }, { "start_pos": "275", "end_pos": "277" }, { "start_pos": "282", "end_pos": "282" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "309", "end_pos": "310" }, { "start_pos": "332", "end_pos": "333" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "428", "end_pos": "429" }, { "start_pos": "444", "end_pos": "445" }, { "start_pos": "467", "end_pos": "469" }, { "start_pos": "486", "end_pos": "487" }, { "start_pos": "490", "end_pos": "492" }, { "start_pos": "502", "end_pos": "502" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "510" }, { "start_pos": "559", "end_pos": "560" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "572", "end_pos": "574" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "107", "end_pos": "107" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "571", "end_pos": "571" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53632-1.77.77", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53633-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P53633-1", "length": 176, "uniprot_id": "PRA1_YEAST", "protein_name": "Prenylated Rab acceptor 1", "refseq_ac": "NP_014354", "refseq_name": "Yip3p", "gene_name": "YIP3", "gene_names_uniprotkb": "YIP3; N2650; PRA1", "gene_names_refseq": "YIP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53633", "url": "https://www.uniprot.org/uniprotkb/P53633" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53633", "url": "https://www.uniprot.org/uniprotkb/P53633" }, { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53633", "url": "https://www.uniprot.org/uniprotkb/P53633", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004989", "url": "https://www.yeastgenome.org/locus/S000004989", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MNQLGALAQVSRFTQNF", "down_seq": "MENIKSEFQSLQSKLATLRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53633", "url": "https://www.uniprot.org/uniprotkb/P53633" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" }, { "database": "SGD", "id": "S000004989", "url": "https://www.yeastgenome.org/locus/S000004989" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser18" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "18", "end_pos": "18" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "38", "end_pos": "38" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P53633-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53633-1.38.38", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53633-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P53633-1", "length": 176, "uniprot_id": "PRA1_YEAST", "protein_name": "Prenylated Rab acceptor 1", "refseq_ac": "NP_014354", "refseq_name": "Yip3p", "gene_name": "YIP3", "gene_names_uniprotkb": "YIP3; N2650; PRA1", "gene_names_refseq": "YIP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53633", "url": "https://www.uniprot.org/uniprotkb/P53633" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004989", "url": "https://www.yeastgenome.org/locus/S000004989", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QNFSMENIKSEFQSLQSKLA", "down_seq": "LRTPQEFFNFKKISKPQNFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004989", "url": "https://www.yeastgenome.org/locus/S000004989" }, { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "18", "end_pos": "18" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "38", "end_pos": "38" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53633-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53633-1.38.38", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53633-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P53633-1", "length": 176, "uniprot_id": "PRA1_YEAST", "protein_name": "Prenylated Rab acceptor 1", "refseq_ac": "NP_014354", "refseq_name": "Yip3p", "gene_name": "YIP3", "gene_names_uniprotkb": "YIP3; N2650; PRA1", "gene_names_refseq": "YIP3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53633", "url": "https://www.uniprot.org/uniprotkb/P53633" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004989", "url": "https://www.yeastgenome.org/locus/S000004989", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SMENIKSEFQSLQSKLATLR", "down_seq": "PQEFFNFKKISKPQNFGEVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004989", "url": "https://www.yeastgenome.org/locus/S000004989" }, { "database": "iPTMnet", "id": "P53633", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53633" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr38" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "18", "end_pos": "18" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "38", "end_pos": "38" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53633-1.18.18", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53633-1.35.35", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural basis for nicotinamide inhibition and base exchange in Sir2 enzymes.", "journal": "Molecular cell", "date": "2007-02-09", "authors": "Sanders Brandi D, Zhao Kehao, Slama James T, Marmorstein Ronen", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "reference": [ { "type": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] } ], "crossref": [ { "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "HYLLKLFQDKDVLKRVYTQN", "down_seq": "DTLERQAGVKDDLIIEAHGS", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "A", "comment": "Nearly or completely catalytically inactive.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] }, { "sequence_org": "I", "sequence_mut": "D", "comment": "Nearly or completely catalytically inactive.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] }, { "sequence_org": "I", "sequence_mut": "F", "comment": "Near wild-type activity for deacetylation. Increases slightly the KM for NAD(+) to 25 uM.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] }, { "sequence_org": "I", "sequence_mut": "H", "comment": "Nearly or completely catalytically inactive.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] }, { "sequence_org": "I", "sequence_mut": "V", "comment": "Near wild-type activity for deacetylation. Increases slightly the KM for NAD(+) to 25 uM.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] }, { "sequence_org": "I", "sequence_mut": "W", "comment": "Nearly or completely catalytically inactive.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] }, { "sequence_org": "I", "sequence_mut": "Y", "comment": "Nearly or completely catalytically inactive.", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "17289592", "url": "https://glygen.org/publication/PubMed/17289592" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "VSTASTEMSVRKIAAHMKSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53686-1.4.4", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.316.316", "start_pos": 316, "end_pos": 316, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "14-3-3 Protein Bmh1 triggers short-range compaction of mitotic chromosomes by recruiting sirtuin deacetylase Hst2.", "journal": "The Journal of biological chemistry", "date": "2021", "authors": "Jain Neha, Janning Petra, Neumann Heinz", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982" } ] } ], "crossref": [ { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GMGDNSKEQLLEIVHDLENL", "down_seq": "LDQSEHESADKKDKKLQRLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982" } ], "site_lbl": "Ser316" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53686-1.320.320", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53686-1.324.324", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "14-3-3 Protein Bmh1 triggers short-range compaction of mitotic chromosomes by recruiting sirtuin deacetylase Hst2.", "journal": "The Journal of biological chemistry", "date": "2021", "authors": "Jain Neha, Janning Petra, Neumann Heinz", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSKEQLLEIVHDLENLSLDQ", "down_seq": "EHESADKKDKKLQRLNGHDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982" }, { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser320" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53686-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53686-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53686-1.340.340", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.324.324", "start_pos": 324, "end_pos": 324, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "14-3-3 Protein Bmh1 triggers short-range compaction of mitotic chromosomes by recruiting sirtuin deacetylase Hst2.", "journal": "The Journal of biological chemistry", "date": "2021", "authors": "Jain Neha, Janning Petra, Neumann Heinz", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLLEIVHDLENLSLDQSEHE", "down_seq": "ADKKDKKLQRLNGHDSDEDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "33187982", "url": "https://glygen.org/publication/PubMed/33187982" }, { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser324" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53686-1.316.316", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53686-1.320.320", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53686-1.340.340", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.340.340", "start_pos": 340, "end_pos": 340, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A large-scale method to measure absolute protein phosphorylation stoichiometries.", "journal": "Nature methods", "date": "2011-07-03", "authors": "Wu Ronghu, Haas Wilhelm, Dephoure Noah, Huttlin Edward L, Zhai Bo, Sowa Mathew E, Gygi Steven P", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "21725298", "url": "https://glygen.org/publication/PubMed/21725298" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "21725298", "url": "https://glygen.org/publication/PubMed/21725298", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEHESADKKDKKLQRLNGHD", "down_seq": "DEDGASNSSSSQKAAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "PubMed", "id": "21725298", "url": "https://glygen.org/publication/PubMed/21725298" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser340" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53686-1.320.320", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53686-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53686-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53686-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53686-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53686-1.351.351", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.348.348", "start_pos": 348, "end_pos": 348, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDKKLQRLNGHDSDEDGASN", "down_seq": "SSSQKAAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser348" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53686-1.340.340", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53686-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53686-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53686-1.351.351", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKKLQRLNGHDSDEDGASNS", "down_seq": "SSQKAAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53686-1.340.340", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53686-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53686-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53686-1.351.351", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.350.350", "start_pos": 350, "end_pos": 350, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKLQRLNGHDSDEDGASNSS", "down_seq": "SQKAAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser350" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53686-1.340.340", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53686-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53686-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53686-1.351.351", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLQRLNGHDSDEDGASNSSS", "down_seq": "QKAAKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53686-1.340.340", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53686-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53686-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53686-1.350.350", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KVIFMVGAGISTSCGIPDFR", "down_seq": "PGTGLYHNLARLKLPYPEAV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser46" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53686-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P53686-1", "length": 357, "uniprot_id": "HST2_YEAST", "protein_name": "NAD-dependent protein deacetylase HST2", "refseq_ac": "NP_015310", "refseq_name": "histone deacetylase HST2", "gene_name": "HST2", "gene_names_uniprotkb": "HST2; LPA2C", "gene_names_refseq": "HST2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53686", "url": "https://www.uniprot.org/uniprotkb/P53686" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSV", "down_seq": "TASTEMSVRKIAAHMKSNPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005936", "url": "https://www.yeastgenome.org/locus/S000005936" }, { "database": "iPTMnet", "id": "P53686", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53686" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "316", "end_pos": "316" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "4", "end_pos": "4" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53686-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53691-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P53691-1", "length": 371, "uniprot_id": "PPID_YEAST", "protein_name": "Peptidyl-prolyl cis-trans isomerase CPR6", "refseq_ac": "NP_013317", "refseq_name": "peptidylprolyl isomerase CPR6", "gene_name": "CPR6", "gene_names_uniprotkb": "CPR6; L8167.24", "gene_names_refseq": "CPR6; CYP40", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53691", "url": "https://www.uniprot.org/uniprotkb/P53691" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53691" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004206", "url": "https://www.yeastgenome.org/locus/S000004206", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53691", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KIDDCGVLPDDYQVPENAEA", "down_seq": "PTDEYGDNYEDVLKQDEKVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004206", "url": "https://www.yeastgenome.org/locus/S000004206" }, { "database": "iPTMnet", "id": "P53691", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53691" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr188" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "188", "end_pos": "188" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.100.100", "start_pos": 100, "end_pos": 100, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEGQSSRFSKLKSMFQSGNS", "down_seq": "KNASAHNSSQSSLEGDSASS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser100" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLKSMFQSGNSSKNASAHNS", "down_seq": "QSSLEGDSASSSSKLRYVKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser109" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53739-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53739-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSMFQSGNSSKNASAHNSSQ", "down_seq": "SLEGDSASSSSKLRYVKPMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53739-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53739-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SMFQSGNSSKNASAHNSSQS", "down_seq": "LEGDSASSSSKLRYVKPMTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53739-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53739-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "HNSSQSSLEGDSASSSSKLR", "down_seq": "VKPMTSVANASPASPPLSPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr126" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53739-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSLEGDSASSSSKLRYVKPM", "down_seq": "SVANASPASPPLSPTIPETD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" } ], "site_lbl": "Thr131" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLEGDSASSSSKLRYVKPMT", "down_seq": "VANASPASPPLSPTIPETDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" } ], "site_lbl": "Ser132" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SASSSSKLRYVKPMTSVANA", "down_seq": "PASPPLSPTIPETDVLQTPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser137" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.140.140", "start_pos": 140, "end_pos": 140, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSKLRYVKPMTSVANASPA", "down_seq": "PPLSPTIPETDVLQTPKMVH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser140" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRYVKPMTSVANASPASPPL", "down_seq": "PTIPETDVLQTPKMVHIDQH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser144" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "YVKPMTSVANASPASPPLSP", "down_seq": "IPETDVLQTPKMVHIDQHEH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" } ], "site_lbl": "Thr146" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MTSVANASPASPPLSPTIPE", "down_seq": "DVLQTPKMVHIDQHEHEREH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr150" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53739-1.131.131", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53739-1.132.132", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NASPASPPLSPTIPETDVLQ", "down_seq": "PKMVHIDQHEHEREHSNCGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr155" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53739-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.140.140", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53739-1.144.144", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53739-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53739-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.175.175", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.171.171", "start_pos": 171, "end_pos": 171, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DVLQTPKMVHIDQHEHEREH", "down_seq": "NCGSPIMLSSSSFSPTVART", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser171" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TPKMVHIDQHEHEREHSNCG", "down_seq": "PIMLSSSSFSPTVARTGTGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser175" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.155.155", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HIDQHEHEREHSNCGSPIML", "down_seq": "SSSFSPTVARTGTGRRRSPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser180" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53739-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.200.200", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QHEHEREHSNCGSPIMLSSS", "down_seq": "FSPTVARTGTGRRRSPSTPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser183" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53739-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53739-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53739-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EHEREHSNCGSPIMLSSSSF", "down_seq": "PTVARTGTGRRRSPSTPIMP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53739-1.171.171", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53739-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53739-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MLSSSSFSPTVARTGTGRRR", "down_seq": "PSTPIMPSQNSNNSSSTSAI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser198" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53739-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.200.200", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.200.200", "start_pos": 200, "end_pos": 200, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSSFSPTVARTGTGRRRSP", "down_seq": "TPIMPSQNSNNSSSTSAIRP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser200" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSSFSPTVARTGTGRRRSPS", "down_seq": "PIMPSQNSNNSSSTSAIRPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" } ], "site_lbl": "Thr201" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53739-1.183.183", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53739-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.200.200", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QNSNNSSSTSAIRPNNYRHH", "down_seq": "GSQGFSSNNPFRERAGTVRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser227" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53739-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53739-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNNSSSTSAIRPNNYRHHSG", "down_seq": "QGFSSNNPFRERAGTVRSSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser229" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53739-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.244.244", "start_pos": 244, "end_pos": 244, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A protein kinase network regulates the function of aminophospholipid flippases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2010-01-05", "authors": "Roelants Fran\u00e7oise M, Baltz Alexander G, Trott Amy E, Fereres Sol, Thorner Jeremy", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RHHSGSQGFSSNNPFRERAG", "down_seq": "VRSSNPYFAYQGLPTHAMSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303" } ], "site_lbl": "Thr244" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53739-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53739-1.263.263", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.263.263", "start_pos": 263, "end_pos": 263, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GTVRSSNPYFAYQGLPTHAM", "down_seq": "SHDLDEGFQPYANGSGIHFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser263" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53739-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QPYANGSGIHFLSTPTSKTN", "down_seq": "LTNTKNLSNLSLNEIKENEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53739-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.300.300", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NGSGIHFLSTPTSKTNSLTN", "down_seq": "KNLSNLSLNEIKENEEVQEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr296" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53739-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.300.300", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53739-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.300.300", "start_pos": 300, "end_pos": 300, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IHFLSTPTSKTNSLTNTKNL", "down_seq": "NLSLNEIKENEEVQEFNNED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser300" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53739-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.303.303", "start_pos": 303, "end_pos": 303, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSTPTSKTNSLTNTKNLSNL", "down_seq": "LNEIKENEEVQEFNNEDFFF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser303" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53739-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53739-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.300.300", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EFNNEDFFFHDIPKDLSLKD", "down_seq": "LNGSPSRGSSKSPTITQTFP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Thr335" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53739-1.339.339", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.341.341", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.344.344", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.339.339", "start_pos": 339, "end_pos": 339, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDFFFHDIPKDLSLKDTLNG", "down_seq": "PSRGSSKSPTITQTFPSIIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser339" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53739-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.341.341", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.344.344", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.341.341", "start_pos": 341, "end_pos": 341, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FFFHDIPKDLSLKDTLNGSP", "down_seq": "RGSSKSPTITQTFPSIIVGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser341" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53739-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.339.339", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.344.344", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.344.344", "start_pos": 344, "end_pos": 344, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HDIPKDLSLKDTLNGSPSRG", "down_seq": "SKSPTITQTFPSIIVGFDNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser344" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53739-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.339.339", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.341.341", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A protein kinase network regulates the function of aminophospholipid flippases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2010-01-05", "authors": "Roelants Fran\u00e7oise M, Baltz Alexander G, Trott Amy E, Fereres Sol, Thorner Jeremy", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EHEHDSLQRPTTGSERTRSI", "down_seq": "FSKLLTRSWKRNASSSNNMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P53739-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53739-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.57.57", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.392.392", "start_pos": 392, "end_pos": 392, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKHDEKEEQQTTTDNKTRNL", "down_seq": "PTKQNGKATHPRIKIPLRRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser392" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53739-1.394.394", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.394.394", "start_pos": 394, "end_pos": 394, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HDEKEEQQTTTDNKTRNLSP", "down_seq": "KQNGKATHPRIKIPLRRAAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr394" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53739-1.392.392", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.414.414", "start_pos": 414, "end_pos": 414, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKQNGKATHPRIKIPLRRAA", "down_seq": "EPNGLQLASATSPTSSSARK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser414" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.423.423", "start_pos": 423, "end_pos": 423, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PRIKIPLRRAASEPNGLQLA", "down_seq": "ATSPTSSSARKTSGSSNIND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser423" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IKIPLRRAASEPNGLQLASA", "down_seq": "SPTSSSARKTSGSSNINDKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr425" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KIPLRRAASEPNGLQLASAT", "down_seq": "PTSSSARKTSGSSNINDKIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser426" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.428.428", "start_pos": 428, "end_pos": 428, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PLRRAASEPNGLQLASATSP", "down_seq": "SSSARKTSGSSNINDKIPGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr428" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.429.429", "start_pos": 429, "end_pos": 429, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRRAASEPNGLQLASATSPT", "down_seq": "SSARKTSGSSNINDKIPGQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser429" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.449.449", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.430.430", "start_pos": 430, "end_pos": 430, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RRAASEPNGLQLASATSPTS", "down_seq": "SARKTSGSSNINDKIPGQSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser430" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53739-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53739-1.449.449", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PNGLQLASATSPTSSSARKT", "down_seq": "GSSNINDKIPGQSVPPPNSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser436" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53739-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53739-1.425.425", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53739-1.426.426", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53739-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.449.449", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSARKTSGSSNINDKIPGQ", "down_seq": "VPPPNSFFPQEPSPKISDFP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser449" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.429.429", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P53739-1.430.430", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53739-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.462.462", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.462.462", "start_pos": 462, "end_pos": 462, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDKIPGQSVPPPNSFFPQEP", "down_seq": "PKISDFPEPRRSRRLRTKSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser462" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53739-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53739-1.481.481", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.481.481", "start_pos": 481, "end_pos": 481, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A protein kinase network regulates the function of aminophospholipid flippases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2010-01-05", "authors": "Roelants Fran\u00e7oise M, Baltz Alexander G, Trott Amy E, Fereres Sol, Thorner Jeremy", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSPKISDFPEPRRSRRLRTK", "down_seq": "FSNKFQDIMVGPQSFEKIRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19966303", "url": "https://glygen.org/publication/PubMed/19966303" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser481" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53739-1.462.462", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RTRSISFSKLLTRSWKRNAS", "down_seq": "SNNMSVSSVNLYSDPENSRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53739-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TRSISFSKLLTRSWKRNASS", "down_seq": "NNMSVSSVNLYSDPENSRES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser53" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53739-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53739-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.73.73", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SFSKLLTRSWKRNASSSNNM", "down_seq": "VSSVNLYSDPENSRESDHNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53739-1.73.73", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.657.657", "start_pos": 657, "end_pos": 657, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSDFDLSIQAKDSKVPVVKG", "down_seq": "AQSTLVDTKICSDGFRTNSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser657" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P53739-1.674.674", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53739-1.676.676", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SWKRNASSSNNMSVSSVNLY", "down_seq": "DPENSRESDHNNSGSEGQSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser65" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53739-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53739-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53739-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.674.674", "start_pos": 674, "end_pos": 674, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VKGSAQSTLVDTKICSDGFR", "down_seq": "NSFVGTEEYIAPEVIRGNGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr674" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53739-1.657.657", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53739-1.676.676", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.680.680", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.676.676", "start_pos": 676, "end_pos": 676, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSAQSTLVDTKICSDGFRTN", "down_seq": "FVGTEEYIAPEVIRGNGHTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser676" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53739-1.657.657", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53739-1.674.674", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.680.680", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.680.680", "start_pos": 680, "end_pos": 680, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "STLVDTKICSDGFRTNSFVG", "down_seq": "EEYIAPEVIRGNGHTAAVDW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr680" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53739-1.674.674", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53739-1.676.676", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASSSNNMSVSSVNLYSDPEN", "down_seq": "RESDHNNSGSEGQSSRFSKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53739-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53739-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53739-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53739-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNNMSVSSVNLYSDPENSRE", "down_seq": "DHNNSGSEGQSSRFSKLKSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53739-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53739-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSSVNLYSDPENSRESDHNN", "down_seq": "GSEGQSSRFSKLKSMFQSGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser78" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53739-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.814.814", "start_pos": 814, "end_pos": 814, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PVLSEDGYDFAKLSSNKKRQ", "down_seq": "SQDSHKHLDEQEKNMFEERV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr814" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53739-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.818.818", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.815.815", "start_pos": 815, "end_pos": 815, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VLSEDGYDFAKLSSNKKRQT", "down_seq": "QDSHKHLDEQEKNMFEERVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser815" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53739-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.818.818", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.818.818", "start_pos": 818, "end_pos": 818, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDGYDFAKLSSNKKRQTSQD", "down_seq": "HKHLDEQEKNMFEERVEYDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser818" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53739-1.814.814", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.815.815", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.841.841", "start_pos": 841, "end_pos": 841, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HLDEQEKNMFEERVEYDDEV", "down_seq": "EDDPFHDFNSMSLMEQDNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser841" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDPENSRESDHNNSGSEGQS", "down_seq": "RFSKLKSMFQSGNSSKNASA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53739-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53739-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53739-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53739-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53739-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.100.100", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.876.876", "start_pos": 876, "end_pos": 876, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EQDNNSMIYGNTNSYGKIAY", "down_seq": "PNSNRSRSNSHRTFFKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr876" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53739-1.879.879", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53739-1.882.882", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.879.879", "start_pos": 879, "end_pos": 879, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNSMIYGNTNSYGKIAYTPN", "down_seq": "NRSRSNSHRTFFKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser879" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53739-1.876.876", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.882.882", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.882.882", "start_pos": 882, "end_pos": 882, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MIYGNTNSYGKIAYTPNSNR", "down_seq": "RSNSHRTFFKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser882" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53739-1.876.876", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.879.879", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNSGSEGQSSRFSKLKSMFQ", "down_seq": "GNSSKNASAHNSSQSSLEGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser96" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53739-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53739-1.99.99", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53739-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53739-1.99.99", "start_pos": 99, "end_pos": 99, "uniprot_canonical_ac": "P53739-1", "length": 893, "uniprot_id": "FPK1_YEAST", "protein_name": "Flippase kinase 1", "refseq_ac": "NP_014445", "refseq_name": "serine/threonine protein kinase FPK1", "gene_name": "FPK1", "gene_names_uniprotkb": "FPK1; N3449", "gene_names_refseq": "FPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53739", "url": "https://www.uniprot.org/uniprotkb/P53739" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSEGQSSRFSKLKSMFQSGN", "down_seq": "SKNASAHNSSQSSLEGDSAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005330", "url": "https://www.yeastgenome.org/locus/S000005330" }, { "database": "iPTMnet", "id": "P53739", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53739" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser99" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "140", "end_pos": "140" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "200", "end_pos": "200" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "263", "end_pos": "263" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "339", "end_pos": "339" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "430", "end_pos": "430" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "462", "end_pos": "462" }, { "start_pos": "481", "end_pos": "481" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "657", "end_pos": "657" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "674", "end_pos": "674" }, { "start_pos": "676", "end_pos": "676" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "814", "end_pos": "814" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "818", "end_pos": "818" }, { "start_pos": "841", "end_pos": "841" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "876", "end_pos": "876" }, { "start_pos": "879", "end_pos": "879" }, { "start_pos": "882", "end_pos": "882" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "99", "end_pos": "99" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53739-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53739-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53739-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53739-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53739-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53739-1.112.112", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53845-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P53845-1", "length": 314, "uniprot_id": "YIF1_YEAST", "protein_name": "Protein transport protein YIF1", "refseq_ac": "NP_014136", "refseq_name": "protein transporter YIF1", "gene_name": "YIF1", "gene_names_uniprotkb": "YIF1; N0820", "gene_names_refseq": "YIF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53845", "url": "https://www.uniprot.org/uniprotkb/P53845" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005207", "url": "https://www.yeastgenome.org/locus/S000005207", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSYNPYAYAT", "down_seq": "EQNGVNDRFSHTPQQQRPMQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005207", "url": "https://www.yeastgenome.org/locus/S000005207" }, { "database": "iPTMnet", "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser11" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "23", "end_pos": "23" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P53845-1.23.23", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53845-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P53845-1", "length": 314, "uniprot_id": "YIF1_YEAST", "protein_name": "Protein transport protein YIF1", "refseq_ac": "NP_014136", "refseq_name": "protein transporter YIF1", "gene_name": "YIF1", "gene_names_uniprotkb": "YIF1; N0820", "gene_names_refseq": "YIF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53845", "url": "https://www.uniprot.org/uniprotkb/P53845" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005207", "url": "https://www.yeastgenome.org/locus/S000005207", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "YNPYAYATSEQNGVNDRFSH", "down_seq": "PQQQRPMQIPRNTPVNGQGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005207", "url": "https://www.yeastgenome.org/locus/S000005207" }, { "database": "iPTMnet", "id": "P53845", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53845" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr23" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "23", "end_pos": "23" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53845-1.11.11", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CYKCGGPNHMAKDCMKEDGI", "down_seq": "GLKCYTCGQAGHMSRDCQND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser114" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P53849-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKEDGISGLKCYTCGQAGHM", "down_seq": "RDCQNDRLCYNCNETGHISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser128" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53849-1.114.114", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSQKACYVCGKIGHLAEDCD", "down_seq": "ERLCYNCNKPGHVQTDCTMP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser21" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QTDCTMPRTVEFKQCYNCGE", "down_seq": "GHVRSECTVQRCFNCNQTGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P53849-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53849-1.73.73", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MPRTVEFKQCYNCGETGHVR", "down_seq": "ECTVQRCFNCNQTGHISREC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53849-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53849-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53849-1.77.77", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GETGHVRSECTVQRCFNCNQ", "down_seq": "GHISRECPEPKKTSRFSKVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53849-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53849-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53849-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53849-1.93.93", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HVRSECTVQRCFNCNQTGHI", "down_seq": "RECPEPKKTSRFSKVSCYKC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53849-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53849-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53849-1.93.93", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53849-1.93.93", "start_pos": 93, "end_pos": 93, "uniprot_canonical_ac": "P53849-1", "length": 153, "uniprot_id": "GIS2_YEAST", "protein_name": "Zinc finger protein GIS2", "refseq_ac": "NP_014144", "refseq_name": "mRNA-binding translational activator GIS2", "gene_name": "GIS2", "gene_names_uniprotkb": "GIS2; N0852", "gene_names_refseq": "GIS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53849", "url": "https://www.uniprot.org/uniprotkb/P53849" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TGHISRECPEPKKTSRFSKV", "down_seq": "CYKCGGPNHMAKDCMKEDGI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005199", "url": "https://www.yeastgenome.org/locus/S000005199" }, { "database": "iPTMnet", "id": "P53849", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53849" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser93" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "114", "end_pos": "114" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "21", "end_pos": "21" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53849-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53849-1.77.77", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AQNIESSIIEEEEEAEEQNN", "down_seq": "INYHEDITGSRLSVREEANE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser133" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "P53858-1.146.146", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EAEEQNNSINYHEDITGSRL", "down_seq": "VREEANENLAMTSPNLIDID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser146" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53858-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.159.159", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.159.159", "start_pos": 159, "end_pos": 159, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DITGSRLSVREEANENLAMT", "down_seq": "PNLIDIDGSNSIQVAPLSLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ], "site_lbl": "Ser159" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53858-1.146.146", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PNLIDIDGSNSIQVAPLSLP", "down_seq": "FEEPDFLSTPRVKPDSQGPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" } ], "site_lbl": "Ser180" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P53858-1.189.189", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.196.196", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NSIQVAPLSLPSFEEPDFLS", "down_seq": "PRVKPDSQGPRSKVSTRRTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ], "site_lbl": "Thr189" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53858-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53858-1.196.196", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.196.196", "start_pos": 196, "end_pos": 196, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSLPSFEEPDFLSTPRVKPD", "down_seq": "QGPRSKVSTRRTILERDNNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser196" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.180.180", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53858-1.189.189", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "", "down_seq": "STSINTLDHARTFRNSLILK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53858-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.36.36", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TILERDNNLPVKREENTIIN", "down_seq": "ETESTTHSAPFLKEDPKPSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser228" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53858-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.247.247", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RDNNLPVKREENTIINSETE", "down_seq": "TTHSAPFLKEDPKPSPPSSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser232" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53858-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.247.247", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.251.251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSISDSKSSELLNSTFYSST", "down_seq": "INTLDHARTFRNSLILKEIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser23" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53858-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.43.43", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.247.247", "start_pos": 247, "end_pos": 247, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSETESTTHSAPFLKEDPKP", "down_seq": "PPSSKLYNPKVRLNKAEARK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser247" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.251.251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.250.250", "start_pos": 250, "end_pos": 250, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TESTTHSAPFLKEDPKPSPP", "down_seq": "SKLYNPKVRLNKAEARKYTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser250" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.247.247", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.251.251", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESTTHSAPFLKEDPKPSPPS", "down_seq": "KLYNPKVRLNKAEARKYTDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser251" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.247.247", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.250.250", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.277.277", "start_pos": 277, "end_pos": 277, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KVRLNKAEARKYTDSSAQRT", "down_seq": "SAGSVLEDTSMHKKKKSIFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr277" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53858-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.286.286", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.278.278", "start_pos": 278, "end_pos": 278, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VRLNKAEARKYTDSSAQRTT", "down_seq": "AGSVLEDTSMHKKKKSIFSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser278" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53858-1.277.277", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.286.286", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.281.281", "start_pos": 281, "end_pos": 281, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKAEARKYTDSSAQRTTSAG", "down_seq": "VLEDTSMHKKKKSIFSFLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser281" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53858-1.277.277", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53858-1.286.286", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RKYTDSSAQRTTSAGSVLED", "down_seq": "SMHKKKKSIFSFLKKKEPKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" } ], "site_lbl": "Thr286" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53858-1.277.277", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.278.278", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53858-1.281.281", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "DSISDSKSSELLNSTFYSST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53858-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.20.20", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EKNKMSSSSTFSMNIQTSLK", "down_seq": "PEKLKKKSHSSSSIFNSFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ], "site_lbl": "Thr336" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P53858-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53858-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53858-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.349.349", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.346.346", "start_pos": 346, "end_pos": 346, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FSMNIQTSLKTPEKLKKKSH", "down_seq": "SSSIFNSFLKGKIETSDSPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser346" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53858-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.362.362", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.347.347", "start_pos": 347, "end_pos": 347, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SMNIQTSLKTPEKLKKKSHS", "down_seq": "SSIFNSFLKGKIETSDSPRK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser347" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53858-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.362.362", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.348.348", "start_pos": 348, "end_pos": 348, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MNIQTSLKTPEKLKKKSHSS", "down_seq": "SIFNSFLKGKIETSDSPRKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser348" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53858-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.362.362", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NIQTSLKTPEKLKKKSHSSS", "down_seq": "IFNSFLKGKIETSDSPRKEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53858-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.362.362", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.362.362", "start_pos": 362, "end_pos": 362, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKSHSSSSIFNSFLKGKIET", "down_seq": "DSPRKEPMRQKKRTPKSKDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser362" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53858-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.364.364", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.364.364", "start_pos": 364, "end_pos": 364, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SHSSSSIFNSFLKGKIETSD", "down_seq": "PRKEPMRQKKRTPKSKDKKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser364" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53858-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53858-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STFYSSTSINTLDHARTFRN", "down_seq": "LILKEISDQSLNSSIKPCES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser36" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53858-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53858-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.394.394", "start_pos": 394, "end_pos": 394, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRTPKSKDKKQDTEQIIDAA", "down_seq": "VLSTESPLLRKNHDDTPVKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser394" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53858-1.397.397", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.410.410", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.397.397", "start_pos": 397, "end_pos": 397, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PKSKDKKQDTEQIIDAASVL", "down_seq": "TESPLLRKNHDDTPVKIDHV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser397" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53858-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.410.410", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.400.400", "start_pos": 400, "end_pos": 400, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDKKQDTEQIIDAASVLSTE", "down_seq": "PLLRKNHDDTPVKIDHVTRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser400" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53858-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.397.397", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.410.410", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IDAASVLSTESPLLRKNHDD", "down_seq": "PVKIDHVTRSIDQRKPTPLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Thr410" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Thr410" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr410" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.394.394", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53858-1.397.397", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.400.400", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.427.427", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HDDTPVKIDHVTRSIDQRKP", "down_seq": "PLNMDLILGGDKQINTPLQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr427" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53858-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.443.443", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SINTLDHARTFRNSLILKEI", "down_seq": "DQSLNSSIKPCESVLDRDVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser43" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53858-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.443.443", "start_pos": 443, "end_pos": 443, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QRKPTPLNMDLILGGDKQIN", "down_seq": "PLQEHVREDDDAKNDLQLPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr443" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.427.427", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TLDHARTFRNSLILKEISDQ", "down_seq": "LNSSIKPCESVLDRDVESSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser46" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53858-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.65.65", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNDLQLPTKDNFLSLDYEAP", "down_seq": "PAFSKHDTGEVLFPKFLDNH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser476" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53858-1.480.480", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.480.480", "start_pos": 480, "end_pos": 480, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLPTKDNFLSLDYEAPSPAF", "down_seq": "KHDTGEVLFPKFLDNHEVDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser480" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53858-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HARTFRNSLILKEISDQSLN", "down_seq": "SIKPCESVLDRDVESSVLQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53858-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.65.65", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSD", "down_seq": "ISDSKSSELLNSTFYSSTSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53858-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.6.6", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.23.23", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKHDTGEVLFPKFLDNHEVD", "down_seq": "IVSLERTRSTKSNKRSSMNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser500" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.503.503", "start_pos": 503, "end_pos": 503, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DTGEVLFPKFLDNHEVDSIV", "down_seq": "LERTRSTKSNKRSSMNSQRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser503" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53858-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ARTFRNSLILKEISDQSLNS", "down_seq": "IKPCESVLDRDVESSVLQRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser50" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53858-1.36.36", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53858-1.43.43", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.70.70", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EVDSIVSLERTRSTKSNKRS", "down_seq": "MNSQRRSLTDTLSIKAQSEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser517" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53858-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53858-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53858-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.530.530", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SIVSLERTRSTKSNKRSSMN", "down_seq": "QRRSLTDTLSIKAQSEGMFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser520" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53858-1.503.503", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.530.530", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.524.524", "start_pos": 524, "end_pos": 524, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LERTRSTKSNKRSSMNSQRR", "down_seq": "LTDTLSIKAQSEGMFITEAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser524" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.530.530", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.526.526", "start_pos": 526, "end_pos": 526, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RTRSTKSNKRSSMNSQRRSL", "down_seq": "DTLSIKAQSEGMFITEASSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr526" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.530.530", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.528.528", "start_pos": 528, "end_pos": 528, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RSTKSNKRSSMNSQRRSLTD", "down_seq": "LSIKAQSEGMFITEASSVVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr528" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.530.530", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.530.530", "start_pos": 530, "end_pos": 530, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKSNKRSSMNSQRRSLTDTL", "down_seq": "IKAQSEGMFITEASSVVLST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser530" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53858-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.524.524", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.526.526", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.550.550", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.550.550", "start_pos": 550, "end_pos": 550, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SIKAQSEGMFITEASSVVLS", "down_seq": "PDLTKSPASSILKNGRFEYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr550" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.530.530", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.556.556", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.556.556", "start_pos": 556, "end_pos": 556, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EGMFITEASSVVLSTPDLTK", "down_seq": "PASSILKNGRFEYSDNFSRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser556" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53858-1.550.550", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.559.559", "start_pos": 559, "end_pos": 559, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FITEASSVVLSTPDLTKSPA", "down_seq": "SILKNGRFEYSDNFSREHSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser559" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53858-1.550.550", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.556.556", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.579.579", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.560.560", "start_pos": 560, "end_pos": 560, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ITEASSVVLSTPDLTKSPAS", "down_seq": "ILKNGRFEYSDNFSREHSYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser560" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53858-1.550.550", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.556.556", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.579.579", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.570.570", "start_pos": 570, "end_pos": 570, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TPDLTKSPASSILKNGRFEY", "down_seq": "DNFSREHSYEGTTNEDFLDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser570" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.550.550", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.556.556", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53858-1.582.582", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.574.574", "start_pos": 574, "end_pos": 574, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKSPASSILKNGRFEYSDNF", "down_seq": "REHSYEGTTNEDFLDIKDDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser574" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.556.556", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53858-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.582.582", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.578.578", "start_pos": 578, "end_pos": 578, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASSILKNGRFEYSDNFSREH", "down_seq": "YEGTTNEDFLDIKDDSGPLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser578" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.582.582", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.579.579", "start_pos": 579, "end_pos": 579, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SSILKNGRFEYSDNFSREHS", "down_seq": "EGTTNEDFLDIKDDSGPLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr579" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.559.559", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P53858-1.560.560", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.582.582", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.582.582", "start_pos": 582, "end_pos": 582, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LKNGRFEYSDNFSREHSYEG", "down_seq": "TNEDFLDIKDDSGPLKKDDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ], "site_lbl": "Thr582" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53858-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.574.574", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.578.578", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.579.579", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.606.606", "start_pos": 606, "end_pos": 606, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DFLDIKDDSGPLKKDDIFLE", "down_seq": "IEQKFDQLVMASDEEKTEVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser606" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P53858-1.618.618", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.623.623", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.618.618", "start_pos": 618, "end_pos": 618, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKDDIFLESIEQKFDQLVMA", "down_seq": "DEEKTEVERDVPKPREEPLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser618" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53858-1.606.606", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53858-1.623.623", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.623.623", "start_pos": 623, "end_pos": 623, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FLESIEQKFDQLVMASDEEK", "down_seq": "EVERDVPKPREEPLKKDSER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr623" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53858-1.606.606", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53858-1.618.618", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.641.641", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.641.641", "start_pos": 641, "end_pos": 641, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKTEVERDVPKPREEPLKKD", "down_seq": "ERQSVFADDDNELISDIMEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser641" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.623.623", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.645.645", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.645.645", "start_pos": 645, "end_pos": 645, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VERDVPKPREEPLKKDSERQ", "down_seq": "VFADDDNELISDIMEFASFI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser645" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53858-1.641.641", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DQSLNSSIKPCESVLDRDVE", "down_seq": "SVLQRSFGESNARDSEVQTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.74.74", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QSLNSSIKPCESVLDRDVES", "down_seq": "VLQRSFGESNARDSEVQTVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser65" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53858-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53858-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.74.74", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.687.687", "start_pos": 687, "end_pos": 687, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FGDDDLNLDLDLGDTTASYA", "down_seq": "ETPEPVGNDEVNRSGTFDTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr687" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53858-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.701.701", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.689.689", "start_pos": 689, "end_pos": 689, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DDDLNLDLDLGDTTASYATE", "down_seq": "PEPVGNDEVNRSGTFDTRNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr689" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53858-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53858-1.701.701", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSDSI", "down_seq": "DSKSSELLNSTFYSSTSINT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53858-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.23.23", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.701.701", "start_pos": 701, "end_pos": 701, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTASYATETPEPVGNDEVNR", "down_seq": "GTFDTRNNKEDSYKERETQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser701" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53858-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53858-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53858-1.713.713", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.719.719", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.703.703", "start_pos": 703, "end_pos": 703, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ASYATETPEPVGNDEVNRSG", "down_seq": "FDTRNNKEDSYKERETQSYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr703" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.687.687", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53858-1.689.689", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.701.701", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.713.713", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.719.719", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.722.722", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.723.723", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SIKPCESVLDRDVESSVLQR", "down_seq": "FGESNARDSEVQTVNMTTSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53858-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.89.89", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.713.713", "start_pos": 713, "end_pos": 713, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGNDEVNRSGTFDTRNNKED", "down_seq": "YKERETQSYSAAGATTYGDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser713" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53858-1.701.701", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.719.719", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.722.722", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.723.723", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.719.719", "start_pos": 719, "end_pos": 719, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NRSGTFDTRNNKEDSYKERE", "down_seq": "QSYSAAGATTYGDERQGQLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr719" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53858-1.701.701", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.713.713", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.722.722", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.723.723", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.721.721", "start_pos": 721, "end_pos": 721, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGTFDTRNNKEDSYKERETQ", "down_seq": "YSAAGATTYGDERQGQLHTF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser721" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.701.701", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.713.713", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.719.719", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.722.722", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.723.723", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.740.740", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.722.722", "start_pos": 722, "end_pos": 722, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "GTFDTRNNKEDSYKERETQS", "down_seq": "SAAGATTYGDERQGQLHTFE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr722" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53858-1.713.713", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.719.719", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.723.723", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.740.740", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.723.723", "start_pos": 723, "end_pos": 723, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TFDTRNNKEDSYKERETQSY", "down_seq": "AAGATTYGDERQGQLHTFEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser723" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.703.703", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.713.713", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.719.719", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.722.722", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.740.740", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.740.740", "start_pos": 740, "end_pos": 740, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QSYSAAGATTYGDERQGQLH", "down_seq": "FEQDGSEINDNEFENEDFNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr740" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53858-1.722.722", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53858-1.723.723", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.746.746", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.746.746", "start_pos": 746, "end_pos": 746, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GATTYGDERQGQLHTFEQDG", "down_seq": "EINDNEFENEDFNKHIEQPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser746" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53858-1.740.740", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CESVLDRDVESSVLQRSFGE", "down_seq": "NARDSEVQTVNMTTSPSLSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser74" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53858-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53858-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.87.87", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53858-1.89.89", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NDNEFENEDFNKHIEQPIEV", "down_seq": "PRNNAYLPEFEPNRPVSMSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr769" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P53858-1.786.786", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.786.786", "start_pos": 786, "end_pos": 786, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IEVTPRNNAYLPEFEPNRPV", "down_seq": "MSFKGLKAPRMNTSFIDSMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser786" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53858-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.788.788", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.788.788", "start_pos": 788, "end_pos": 788, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VTPRNNAYLPEFEPNRPVSM", "down_seq": "FKGLKAPRMNTSFIDSMTPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser788" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.786.786", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.800.800", "start_pos": 800, "end_pos": 800, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EPNRPVSMSFKGLKAPRMNT", "down_seq": "FIDSMTPDSPVKSDLTSLGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser800" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53858-1.786.786", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53858-1.788.788", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.806.806", "start_pos": 806, "end_pos": 806, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SMSFKGLKAPRMNTSFIDSM", "down_seq": "PDSPVKSDLTSLGEVYVNSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr806" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53858-1.786.786", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53858-1.788.788", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.809.809", "start_pos": 809, "end_pos": 809, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FKGLKAPRMNTSFIDSMTPD", "down_seq": "PVKSDLTSLGEVYVNSNNDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser809" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.813.813", "start_pos": 813, "end_pos": 813, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KAPRMNTSFIDSMTPDSPVK", "down_seq": "DLTSLGEVYVNSNNDQGVRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" } ], "site_lbl": "Ser813" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.816.816", "start_pos": 816, "end_pos": 816, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RMNTSFIDSMTPDSPVKSDL", "down_seq": "SLGEVYVNSNNDQGVRFSSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr816" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53858-1.835.835", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.817.817", "start_pos": 817, "end_pos": 817, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MNTSFIDSMTPDSPVKSDLT", "down_seq": "LGEVYVNSNNDQGVRFSSQI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser817" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53858-1.800.800", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53858-1.835.835", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.822.822", "start_pos": 822, "end_pos": 822, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IDSMTPDSPVKSDLTSLGEV", "down_seq": "VNSNNDQGVRFSSQIILYDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr822" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53858-1.835.835", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.825.825", "start_pos": 825, "end_pos": 825, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTPDSPVKSDLTSLGEVYVN", "down_seq": "NNDQGVRFSSQIILYDTYGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser825" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.806.806", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53858-1.809.809", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53858-1.813.813", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53858-1.835.835", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.835.835", "start_pos": 835, "end_pos": 835, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LTSLGEVYVNSNNDQGVRFS", "down_seq": "QIILYDTYGEFEYDRHPEIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser835" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53858-1.817.817", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53858-1.822.822", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53858-1.825.825", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.87.87", "start_pos": 87, "end_pos": 87, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LQRSFGESNARDSEVQTVNM", "down_seq": "TSPSLSALADILNERSKYAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Thr87" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53858-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53858-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53858-1.89.89", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53858-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P53858-1", "length": 892, "uniprot_id": "BNI4_YEAST", "protein_name": "Protein BNI4", "refseq_ac": "NP_014166", "refseq_name": "Bni4p", "gene_name": "BNI4", "gene_names_uniprotkb": "BNI4; N1146", "gene_names_refseq": "BNI4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53858", "url": "https://www.uniprot.org/uniprotkb/P53858" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2009-07", "authors": "Zou Jian, Friesen Helena, Larson Jennifer, Huang Dongqing, Cox Mike, Tatchell Kelly, Andrews Brenda", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RSFGESNARDSEVQTVNMTT", "down_seq": "PSLSALADILNERSKYADQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005177", "url": "https://www.yeastgenome.org/locus/S000005177" }, { "database": "iPTMnet", "id": "P53858", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53858" }, { "database": "PubMed", "id": "19458192", "url": "https://glygen.org/publication/PubMed/19458192" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser89" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "133", "end_pos": "133" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "159", "end_pos": "159" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "196", "end_pos": "196" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "247", "end_pos": "247" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "278", "end_pos": "278" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "364", "end_pos": "364" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "397", "end_pos": "397" }, { "start_pos": "400", "end_pos": "400" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "443", "end_pos": "443" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "524", "end_pos": "524" }, { "start_pos": "526", "end_pos": "526" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "556", "end_pos": "556" }, { "start_pos": "559", "end_pos": "559" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "574", "end_pos": "574" }, { "start_pos": "578", "end_pos": "578" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "606", "end_pos": "606" }, { "start_pos": "618", "end_pos": "618" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "641", "end_pos": "641" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "687", "end_pos": "687" }, { "start_pos": "689", "end_pos": "689" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "701", "end_pos": "701" }, { "start_pos": "703", "end_pos": "703" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "713", "end_pos": "713" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "722", "end_pos": "722" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "740", "end_pos": "740" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "786", "end_pos": "786" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "800", "end_pos": "800" }, { "start_pos": "806", "end_pos": "806" }, { "start_pos": "809", "end_pos": "809" }, { "start_pos": "813", "end_pos": "813" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "825", "end_pos": "825" }, { "start_pos": "835", "end_pos": "835" }, { "start_pos": "87", "end_pos": "87" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53858-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53858-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53858-1.87.87", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSFPDLSPGDLFAQFFNSSA", "down_seq": "PSSNGSKSSFNFSFNNSSTP", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr124", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P53940-1.143.143", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53940-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ATPSSNGSKSSFNFSFNNSS", "down_seq": "PSFSFVNGSGVNNLYSSSAK", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr143", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53940-1.124.124", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "P53940-1.166.166", "start_pos": 166, "end_pos": 166, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FSFVNGSGVNNLYSSSAKYN", "down_seq": "NDEDHHLDRGPDIKHNLKCT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser166" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.207.207", "start_pos": 207, "end_pos": 207, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKELYMGKTAKLGLNRTRIC", "down_seq": "VCDGHGGLKKCTCKTCKGQG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser207" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.437.437", "start_pos": 437, "end_pos": 437, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ENAKKIQNILANDKYIKAER", "down_seq": "TMETADSDCYCDLEKSYDSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser437" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P53940-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53940-1.456.456", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.444.444", "start_pos": 444, "end_pos": 444, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NILANDKYIKAERSTMETAD", "down_seq": "DCYCDLEKSYDSVEEHVLSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser444" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53940-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53940-1.456.456", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.456.456", "start_pos": 456, "end_pos": 456, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RSTMETADSDCYCDLEKSYD", "down_seq": "VEEHVLSSFEAPNLNNEVIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser456" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53940-1.437.437", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53940-1.444.444", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.513.513", "start_pos": 513, "end_pos": 513, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "NNRRFDESNINNNNETKRNK", "down_seq": "SSPVSGFYDHDINGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr513" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53940-1.514.514", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53940-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53940-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.514.514", "start_pos": 514, "end_pos": 514, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NRRFDESNINNNNETKRNKY", "down_seq": "SPVSGFYDHDINGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser514" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53940-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53940-1.515.515", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53940-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.515.515", "start_pos": 515, "end_pos": 515, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RRFDESNINNNNETKRNKYS", "down_seq": "PVSGFYDHDINGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser515" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53940-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53940-1.514.514", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53940-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53940-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P53940-1", "length": 528, "uniprot_id": "APJ1_YEAST", "protein_name": "J domain-containing protein APJ1", "refseq_ac": "NP_014322", "refseq_name": "Apj1p", "gene_name": "APJ1", "gene_names_uniprotkb": "APJ1; N2342", "gene_names_refseq": "APJ1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53940", "url": "https://www.uniprot.org/uniprotkb/P53940" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DESNINNNNETKRNKYSSPV", "down_seq": "GFYDHDINGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005021", "url": "https://www.yeastgenome.org/locus/S000005021" }, { "database": "iPTMnet", "id": "P53940", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53940" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser518" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "143", "end_pos": "143" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "166", "end_pos": "166" }, { "start_pos": "207", "end_pos": "207" }, { "start_pos": "437", "end_pos": "437" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "518", "end_pos": "518" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53940-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53940-1.514.514", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53940-1.515.515", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Direct Interaction of Chivosazole F with Actin Elicits Cell Responses Similar to Latrunculin A but Distinct from Chondramide.", "journal": "ACS chemical biology", "date": "2017", "authors": "Filipuzzi I, Thomas JR, Pries V, Estoppey D, Salcius M, Studer C, Schirle M, Hoepfner D", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "reference": [ { "type": "PubMed", "id": "28796488", "url": "https://glygen.org/publication/PubMed/28796488" } ] } ], "crossref": [ { "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28796488", "url": "https://glygen.org/publication/PubMed/28796488", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "VPIYAGFSLPHAILRIDLAG", "down_seq": "DLTDYLMKILSERGYSFSTT", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "K", "comment": "No effect on growth kinetics nor on actin cytoskeleton morphology. Resistant to Chivosazole F inhibition of polymerization. Increases penetrance of Latrunculin A inhibition of polymerization. No effect on Chondramide inhibition of polymerization.", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "PubMed", "id": "28796488", "url": "https://glygen.org/publication/PubMed/28796488" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P60010-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P60010-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P60010-1.201.201", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P60010-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Direct Interaction of Chivosazole F with Actin Elicits Cell Responses Similar to Latrunculin A but Distinct from Chondramide.", "journal": "ACS chemical biology", "date": "2017", "authors": "Filipuzzi I, Thomas JR, Pries V, Estoppey D, Salcius M, Studer C, Schirle M, Hoepfner D", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "reference": [ { "type": "PubMed", "id": "28796488", "url": "https://glygen.org/publication/PubMed/28796488" } ] } ], "crossref": [ { "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "28796488", "url": "https://glygen.org/publication/PubMed/28796488", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "KEITALAPSSMKVKIIAPPE", "down_seq": "KYSVWIGGSILASLTTFQQM", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "K", "comment": "No effect on growth kinetics nor on actin cytoskeleton morphology. Resistant to Chivosazole F and Latrunculin A inhibition of polymerization. No effect on Chondramide inhibition of polymerization.", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "PubMed", "id": "28796488", "url": "https://glygen.org/publication/PubMed/28796488" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P60010-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P60010-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P60010-1.324.324", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.106.106", "start_pos": 106, "end_pos": 106, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "WHHTFYNELRVAPEEHPVLL", "down_seq": "EAPMNPKSNREKMTQIMFET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr106" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.14.14", "start_pos": 14, "end_pos": 14, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MDSEVAALVIDNG", "down_seq": "GMCKAGFAGDDAPRAVFPSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser14" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P60010-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P60010-1.33.33", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IDLAGRDLTDYLMKILSERG", "down_seq": "SFSTTAEREIVRDIKEKLCY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr198" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P60010-1.183.183", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P60010-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P60010-1.201.201", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P60010-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLAGRDLTDYLMKILSERGY", "down_seq": "FSTTAEREIVRDIKEKLCYV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser199" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P60010-1.183.183", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P60010-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P60010-1.201.201", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P60010-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGRDLTDYLMKILSERGYSF", "down_seq": "TTAEREIVRDIKEKLCYVAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser201" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P60010-1.183.183", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P60010-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P60010-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P60010-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RDLTDYLMKILSERGYSFST", "down_seq": "AEREIVRDIKEKLCYVALDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr203" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P60010-1.183.183", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P60010-1.198.198", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P60010-1.199.199", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P60010-1.201.201", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VALDFEQEMQTAAQSSSIEK", "down_seq": "YELPDGQVITIGNERFRAPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser239" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.318.318", "start_pos": 318, "end_pos": 318, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VMSGGTTMFPGIAERMQKEI", "down_seq": "ALAPSSMKVKIIAPPERKYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr318" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P60010-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P60010-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P60010-1.335.335", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTMFPGIAERMQKEITALAP", "down_seq": "SMKVKIIAPPERKYSVWIGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser323" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P60010-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P60010-1.324.324", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P60010-1.335.335", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.324.324", "start_pos": 324, "end_pos": 324, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TMFPGIAERMQKEITALAPS", "down_seq": "MKVKIIAPPERKYSVWIGGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser324" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P60010-1.318.318", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P60010-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P60010-1.335.335", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSGMCKAGFAGDDAPRAVFP", "down_seq": "IVGRPRHQGIMVGMGQKDSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser33" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P60010-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P60010-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P60010-1.53.53", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.365.365", "start_pos": 365, "end_pos": 365, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILASLTTFQQMWISKQEYDE", "down_seq": "GPSIVHHKCF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser365" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P60010-1.368.368", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.368.368", "start_pos": 368, "end_pos": 368, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLTTFQQMWISKQEYDESGP", "down_seq": "IVHHKCF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser368" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P60010-1.365.365", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative proteomics identifies unanticipated regulators of nitrogen- and glucose starvation.", "journal": "Molecular bioSystems", "date": "2014-08", "authors": "R\u00f8dk\u00e6r Steven V, Pultz Dennis, Brusch Michelle, Bennetzen Martin V, Falkenby Lasse G, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MD", "down_seq": "EVAALVIDNGSGMCKAGFAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P60010-1.14.14", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSIVGRPRHQGIMVGMGQKD", "down_seq": "YVGDEAQSKRGILTLRYPIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P60010-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P60010-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P60010-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P60010-1.66.66", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SIVGRPRHQGIMVGMGQKDS", "down_seq": "VGDEAQSKRGILTLRYPIEH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr53" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P60010-1.33.33", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P60010-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P60010-1.60.60", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P60010-1.66.66", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HQGIMVGMGQKDSYVGDEAQ", "down_seq": "KRGILTLRYPIEHGIVTNWD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P60010-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P60010-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P60010-1.66.66", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P60010-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P60010-1", "length": 375, "uniprot_id": "ACT_YEAST", "protein_name": "Actin", "refseq_ac": "NP_116614", "refseq_name": "actin", "gene_name": "ACT1", "gene_names_uniprotkb": "ACT1; ABY1; END7", "gene_names_refseq": "ABY1; ACT1; END7", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P60010", "url": "https://www.uniprot.org/uniprotkb/P60010" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GMGQKDSYVGDEAQSKRGIL", "down_seq": "LRYPIEHGIVTNWDDMEKIW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001855", "url": "https://www.yeastgenome.org/locus/S000001855" }, { "database": "iPTMnet", "id": "P60010", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P60010" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr66" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" }, { "start_pos": "335", "end_pos": "335" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "318", "end_pos": "318" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "66", "end_pos": "66" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P60010-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P60010-1.53.53", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P60010-1.60.60", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2005-11", "authors": "Hyland Edel M, Cosgrove Michael S, Molina Henrik, Wang Dongxia, Pandey Akhilesh, Cottee Robert J, Boeke Jef D", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] } ], "crossref": [ { "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "AYLVSLFEDTNLAAIHAKRV", "down_seq": "IQKKDIKLARRLRGERS", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] }, { "sequence_org": "T", "sequence_mut": "E", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P61830-1.100.100", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation of serine 10 in histone H3 is functionally linked in vitro and in vivo to Gcn5-mediated acetylation at lysine 14.", "journal": "Molecular cell", "date": "2000", "authors": "Lo WS, Trievel RC, Rojas JR, Duggan L, Hsu JY, Allis CD, Marmorstein R, Berger SL", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "10911986", "url": "https://glygen.org/publication/PubMed/10911986" } ] }, { "title": "Mitotic phosphorylation of histone H3 is governed by Ipl1/aurora kinase and Glc7/PP1 phosphatase in budding yeast and nematodes.", "journal": "Cell", "date": "2000-08-04", "authors": "Hsu J Y, Sun Z W, Li X, Reuben M, Tatchell K, Bishop D K, Grushcow J M, Brame C J, Caldwell J A, Hunt D F, Lin R, Smith M M, Allis C D", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "10975519", "url": "https://glygen.org/publication/PubMed/10975519" } ] }, { "title": "Histone H3 phosphorylation can promote TBP recruitment through distinct promoter-specific mechanisms.", "journal": "The EMBO journal", "date": "2005-03-09", "authors": "Lo Wan-Sheng, Gamache Eric R, Henry Karl W, Yang David, Pillus Lorraine, Berger Shelley L", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "15719021", "url": "https://glygen.org/publication/PubMed/15719021" } ] }, { "title": "Snf1--a histone kinase that works in concert with the histone acetyltransferase Gcn5 to regulate transcription.", "journal": "Science (New York, N.Y.)", "date": "2001-08-10", "authors": "Lo W S, Duggan L, Emre N C, Belotserkovskya R, Lane W S, Shiekhattar R, Berger S L", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "11498592", "url": "https://glygen.org/publication/PubMed/11498592" } ] }, { "title": "Phosphorylation of histone H4 Ser1 regulates sporulation in yeast and is conserved in fly and mouse spermatogenesis.", "journal": "Genes & development", "date": "2006", "authors": "Krishnamoorthy T, Chen X, Govin J, Cheung WL, Dorsey J, Schindler K, Winter E, Allis CD, Guacci V, Khochbin S, Fuller MT, Berger SL", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "16980586", "url": "https://glygen.org/publication/PubMed/16980586" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Systematic genetic and proteomic screens during gametogenesis identify H2BK34 methylation as an evolutionary conserved meiotic mark.", "journal": "Epigenetics & chromatin", "date": "2020-09-15", "authors": "Crespo Marion, Luense Lacey J, Arlotto Marie, Hu Jialei, Dorsey Jean, Garc\u00eda-Oliver Encar, Shah Parisha P, Pflieger Delphine, Berger Shelley L, Govin J\u00e9r\u00f4me", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Aurora B activity is promoted by cooperation between discrete localization sites in budding yeast.", "journal": "Molecular biology of the cell", "date": "2022-08-01", "authors": "Marsoner Theodor, Yedavalli Poornima, Masnovo Chiara, Fink Sarah, Schmitzer Katrin, Campbell Christopher S", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "35704464", "url": "https://glygen.org/publication/PubMed/35704464" } ] } ], "crossref": [ { "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10911986", "url": "https://glygen.org/publication/PubMed/10911986", "database": "PubMed", "categories": [ "Other" ] }, { "id": "10975519", "url": "https://glygen.org/publication/PubMed/10975519", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15719021", "url": "https://glygen.org/publication/PubMed/15719021", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11498592", "url": "https://glygen.org/publication/PubMed/11498592", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "16980586", "url": "https://glygen.org/publication/PubMed/16980586", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "35704464", "url": "https://glygen.org/publication/PubMed/35704464", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MARTKQTARK", "down_seq": "TGGKAPRKQLASKAARKSAP", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs histone H3 phosphorylation and reduces transcription of some GCN5 regulated genes.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "10911986", "url": "https://glygen.org/publication/PubMed/10911986" }, { "database": "PubMed", "id": "10975519", "url": "https://glygen.org/publication/PubMed/10975519" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "15719021", "url": "https://glygen.org/publication/PubMed/15719021" }, { "database": "PubMed", "id": "10975519", "url": "https://glygen.org/publication/PubMed/10975519" }, { "database": "PubMed", "id": "10911986", "url": "https://glygen.org/publication/PubMed/10911986" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "11498592", "url": "https://glygen.org/publication/PubMed/11498592" }, { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "PubMed", "id": "16980586", "url": "https://glygen.org/publication/PubMed/16980586" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "35704464", "url": "https://glygen.org/publication/PubMed/35704464" } ], "site_lbl": "Ser11" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P61830-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P61830-1.29.29", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2005-11", "authors": "Hyland Edel M, Cosgrove Michael S, Molina Henrik, Wang Dongxia, Pandey Akhilesh, Cottee Robert J, Boeke Jef D", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] } ], "crossref": [ { "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "TGGVKKPHRYKPGTVALREI", "down_seq": "RFQKSTELLIRKLPFQRLVR", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] }, { "sequence_org": "R", "sequence_mut": "K", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] }, { "sequence_org": "R", "sequence_mut": "Q", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P61830-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P61830-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P61830-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2005-11", "authors": "Hyland Edel M, Cosgrove Michael S, Molina Henrik, Wang Dongxia, Pandey Akhilesh, Cottee Robert J, Boeke Jef D", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] }, { "title": "A role for cell-cycle-regulated histone H3 lysine 56 acetylation in the DNA damage response.", "journal": "Nature", "date": "2005-07-14", "authors": "Masumoto Hiroshi, Hawke David, Kobayashi Ryuji, Verreault Alain", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "16015338", "url": "https://glygen.org/publication/PubMed/16015338" } ] }, { "title": "Characterization of lysine 56 of histone H3 as an acetylation site in Saccharomyces cerevisiae.", "journal": "The Journal of biological chemistry", "date": "2005-07-15", "authors": "Ozdemir Anil, Spicuglia Salvatore, Lasonder Edwin, Vermeulen Michiel, Campsteijn Coen, Stunnenberg Hendrik G, Logie Colin", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "15888442", "url": "https://glygen.org/publication/PubMed/15888442" } ] } ], "crossref": [ { "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16015338", "url": "https://glygen.org/publication/PubMed/16015338", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15888442", "url": "https://glygen.org/publication/PubMed/15888442", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "KKPHRYKPGTVALREIRRFQ", "down_seq": "STELLIRKLPFQRLVREIAQ", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Increases sensitivity to genotoxic agents inducing DNA breaks during replication.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" }, { "database": "PubMed", "id": "16015338", "url": "https://glygen.org/publication/PubMed/16015338" }, { "database": "PubMed", "id": "15888442", "url": "https://glygen.org/publication/PubMed/15888442" } ] }, { "sequence_org": "K", "sequence_mut": "Q", "comment": "Increases sensitivity to genotoxic agents inducing DNA breaks during replication.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" }, { "database": "PubMed", "id": "16015338", "url": "https://glygen.org/publication/PubMed/16015338" }, { "database": "PubMed", "id": "15888442", "url": "https://glygen.org/publication/PubMed/15888442" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "Increases sensitivity to genotoxic agents inducing DNA breaks during replication.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" }, { "database": "PubMed", "id": "16015338", "url": "https://glygen.org/publication/PubMed/16015338" }, { "database": "PubMed", "id": "15888442", "url": "https://glygen.org/publication/PubMed/15888442" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P61830-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P61830-1.53.53", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P61830-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Insights into the role of histone H3 and histone H4 core modifiable residues in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2005-11", "authors": "Hyland Edel M, Cosgrove Michael S, Molina Henrik, Wang Dongxia, Pandey Akhilesh, Cottee Robert J, Boeke Jef D", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" } ] }, { "title": "Lysine methylation within the globular domain of histone H3 by Dot1 is important for telomeric silencing and Sir protein association.", "journal": "Genes & development", "date": "2002-06-15", "authors": "Ng Huck Hui, Feng Qin, Wang Hengbin, Erdjument-Bromage Hediye, Tempst Paul, Zhang Yi, Struhl Kevin", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "reference": [ { "type": "PubMed", "id": "12080090", "url": "https://glygen.org/publication/PubMed/12080090" } ] } ], "crossref": [ { "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12080090", "url": "https://glygen.org/publication/PubMed/12080090", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "ELLIRKLPFQRLVREIAQDF", "down_seq": "TDLRFQSSAIGALQESVEAY", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Compromises telomeric silencing.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" }, { "database": "PubMed", "id": "12080090", "url": "https://glygen.org/publication/PubMed/12080090" } ] }, { "sequence_org": "K", "sequence_mut": "P", "comment": "Compromises telomeric silencing.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" }, { "database": "PubMed", "id": "12080090", "url": "https://glygen.org/publication/PubMed/12080090" } ] }, { "sequence_org": "K", "sequence_mut": "Q", "comment": "Compromises telomeric silencing.", "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" }, { "database": "PubMed", "id": "16260619", "url": "https://glygen.org/publication/PubMed/16260619" }, { "database": "PubMed", "id": "12080090", "url": "https://glygen.org/publication/PubMed/12080090" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P61830-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P61830-1.100.100", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.100.100", "start_pos": 100, "end_pos": 100, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Histone levels are regulated by phosphorylation and ubiquitylation-dependent proteolysis.", "journal": "Nature cell biology", "date": "2009-08", "authors": "Singh Rakesh Kumar, Kabbaj Marie-Helene Miquel, Paik Johanna, Gunjan Akash", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "19578373", "url": "https://glygen.org/publication/PubMed/19578373" } ] } ], "crossref": [ { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19578373", "url": "https://glygen.org/publication/PubMed/19578373", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KTDLRFQSSAIGALQESVEA", "down_seq": "LVSLFEDTNLAAIHAKRVTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "19578373", "url": "https://glygen.org/publication/PubMed/19578373" } ], "site_lbl": "Tyr100" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P61830-1.80.80", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P61830-1.88.88", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P61830-1.119.119", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Histone H3 Threonine 11 Phosphorylation Is Catalyzed Directly by the Meiosis-Specific Kinase Mek1 and Provides a Molecular Readout of Mek1 Activity in Vivo.", "journal": "Genetics", "date": "2017-12", "authors": "Kniewel Ryan, Murakami Hajime, Liu Yan, Ito Masaru, Ohta Kunihiro, Hollingsworth Nancy M, Keeney Scott", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "28986445", "url": "https://glygen.org/publication/PubMed/28986445" } ] }, { "title": "Histone H3 threonine 11 phosphorylation by Sch9 and CK2 regulates chronological lifespan by controlling the nutritional stress response.", "journal": "eLife", "date": "2018-06-25", "authors": "Oh Seunghee, Suganuma Tamaki, Gogol Madelaine M, Workman Jerry L", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "29938647", "url": "https://glygen.org/publication/PubMed/29938647" } ] }, { "title": "Yeast Nuak1 phosphorylates histone H3 threonine 11 in low glucose stress by the cooperation of AMPK and CK2 signaling.", "journal": "eLife", "date": "2020-12-29", "authors": "Oh Seunghee, Lee Jaehyoun, Swanson Selene K, Florens Laurence, Washburn Michael P, Workman Jerry L", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "33372657", "url": "https://glygen.org/publication/PubMed/33372657" } ] }, { "title": "Metabolic regulation of telomere silencing by SESAME complex-catalyzed H3T11 phosphorylation.", "journal": "Nature communications", "date": "2021-01-26", "authors": "Zhang Shihao, Yu Xilan, Zhang Yuan, Xue Xiangyan, Yu Qi, Zha Zitong, Gogol Madelaine, Workman Jerry L, Li Shanshan", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "33500413", "url": "https://glygen.org/publication/PubMed/33500413" } ] } ], "crossref": [ { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "28986445", "url": "https://glygen.org/publication/PubMed/28986445", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29938647", "url": "https://glygen.org/publication/PubMed/29938647", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33372657", "url": "https://glygen.org/publication/PubMed/33372657", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33500413", "url": "https://glygen.org/publication/PubMed/33500413", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MARTKQTARKS", "down_seq": "GGKAPRKQLASKAARKSAPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "28986445", "url": "https://glygen.org/publication/PubMed/28986445" }, { "database": "PubMed", "id": "29938647", "url": "https://glygen.org/publication/PubMed/29938647" }, { "database": "PubMed", "id": "33372657", "url": "https://glygen.org/publication/PubMed/33372657" }, { "database": "PubMed", "id": "33500413", "url": "https://glygen.org/publication/PubMed/33500413" } ], "site_lbl": "Thr12" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P61830-1.11.11", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P61830-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P61830-1.32.32", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Systematic genetic and proteomic screens during gametogenesis identify H2BK34 methylation as an evolutionary conserved meiotic mark.", "journal": "Epigenetics & chromatin", "date": "2020-09-15", "authors": "Crespo Marion, Luense Lacey J, Arlotto Marie, Hu Jialei, Dorsey Jean, Garc\u00eda-Oliver Encar, Shah Parisha P, Pflieger Delphine, Berger Shelley L, Govin J\u00e9r\u00f4me", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" } ] } ], "crossref": [ { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RKSTGGKAPRKQLASKAARK", "down_seq": "APSTGGVKKPHRYKPGTVAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" } ], "site_lbl": "Ser29" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P61830-1.11.11", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P61830-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P61830-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P61830-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TGGKAPRKQLASKAARKSAP", "down_seq": "TGGVKKPHRYKPGTVALREI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P61830-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P61830-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P61830-1.46.46", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.46.46", "start_pos": 46, "end_pos": 46, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Histone H3 Thr 45 phosphorylation is a replication-associated post-translational modification in S. cerevisiae.", "journal": "Nature cell biology", "date": "2010-03", "authors": "Baker Stephen P, Phillips Jennifer, Anderson Scott, Qiu Qifeng, Shabanowitz Jeffrey, Smith M Mitchell, Yates John R, Hunt Donald F, Grant Patrick A", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "20139971", "url": "https://glygen.org/publication/PubMed/20139971" } ] }, { "title": "Systematic genetic and proteomic screens during gametogenesis identify H2BK34 methylation as an evolutionary conserved meiotic mark.", "journal": "Epigenetics & chromatin", "date": "2020-09-15", "authors": "Crespo Marion, Luense Lacey J, Arlotto Marie, Hu Jialei, Dorsey Jean, Garc\u00eda-Oliver Encar, Shah Parisha P, Pflieger Delphine, Berger Shelley L, Govin J\u00e9r\u00f4me", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" } ] } ], "crossref": [ { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20139971", "url": "https://glygen.org/publication/PubMed/20139971", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ARKSAPSTGGVKKPHRYKPG", "down_seq": "VALREIRRFQKSTELLIRKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "20139971", "url": "https://glygen.org/publication/PubMed/20139971" }, { "database": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" } ], "site_lbl": "Thr46" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P61830-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P61830-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P61830-1.53.53", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P61830-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P61830-1.58.58", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Histone H3 serine 57 and lysine 56 interplay in transcription elongation and recovery from S-phase stress.", "journal": "PloS one", "date": "2010-05-26", "authors": "Aslam Aamir, Logie Colin", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "20520775", "url": "https://glygen.org/publication/PubMed/20520775" } ] }, { "title": "Systematic genetic and proteomic screens during gametogenesis identify H2BK34 methylation as an evolutionary conserved meiotic mark.", "journal": "Epigenetics & chromatin", "date": "2020-09-15", "authors": "Crespo Marion, Luense Lacey J, Arlotto Marie, Hu Jialei, Dorsey Jean, Garc\u00eda-Oliver Encar, Shah Parisha P, Pflieger Delphine, Berger Shelley L, Govin J\u00e9r\u00f4me", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20520775", "url": "https://glygen.org/publication/PubMed/20520775", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KPHRYKPGTVALREIRRFQK", "down_seq": "TELLIRKLPFQRLVREIAQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "20520775", "url": "https://glygen.org/publication/PubMed/20520775" }, { "database": "PubMed", "id": "32933557", "url": "https://glygen.org/publication/PubMed/32933557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser58" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P61830-1.46.46", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P61830-1.53.53", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P61830-1.57.57", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P61830-1.88.88", "start_pos": 88, "end_pos": 88, "uniprot_canonical_ac": "P61830-1", "length": 136, "uniprot_id": "H3_YEAST", "protein_name": "Histone H3", "refseq_ac": "NP_009564", "refseq_name": "histone H3", "gene_name": "HHT1; HHT2", "gene_names_uniprotkb": "HHT1; HHT2; N2749; SIN2; YBR0201", "gene_names_refseq": "BUR5; HHT1; SIN2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P61830", "url": "https://www.uniprot.org/uniprotkb/P61830" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FQRLVREIAQDFKTDLRFQS", "down_seq": "AIGALQESVEAYLVSLFEDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000214", "url": "https://www.yeastgenome.org/locus/S000000214" }, { "database": "SGD", "id": "S000004976", "url": "https://www.yeastgenome.org/locus/S000004976" }, { "database": "iPTMnet", "id": "P61830", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P61830" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser88" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "11", "end_pos": "11" }, { "start_pos": "12", "end_pos": "12" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "46", "end_pos": "46" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "88", "end_pos": "88" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P61830-1.80.80", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P61830-1.100.100", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P87108-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P87108-1", "length": 93, "uniprot_id": "TIM10_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM10", "refseq_ac": "NP_011869", "refseq_name": "protein transporter TIM10", "gene_name": "TIM10", "gene_names_uniprotkb": "TIM10; MRS11; YHR005BC", "gene_names_refseq": "MRS11; TIM10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Juxtaposition of the two distal CX3C motifs via intrachain disulfide bonding is essential for the folding of Tim10.", "journal": "The Journal of biological chemistry", "date": "2003-10-03", "authors": "Allen Scott, Lu Hui, Thornton David, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] }, { "title": "The structural basis of the TIM10 chaperone assembly.", "journal": "The Journal of biological chemistry", "date": "2004-04-30", "authors": "Lu Hui, Golovanov Alexander P, Alcock Felicity, Grossmann J G\u00fcnter, Allen Scott, Lian Lu-Yun, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" } ] } ], "crossref": [ { "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976", "database": "PubMed", "categories": [ "Other" ] }, { "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "QAAEAELDLVTDMFNKLVNN", "down_seq": "YKKCINTSYSEGELNKNESS", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Induces impairment in folding and loss of zinc-binding.", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" }, { "database": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" }, { "database": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "40", "end_pos": "40" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P87108-1.44.44", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P87108-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "P87108-1", "length": 93, "uniprot_id": "TIM10_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM10", "refseq_ac": "NP_011869", "refseq_name": "protein transporter TIM10", "gene_name": "TIM10", "gene_names_uniprotkb": "TIM10; MRS11; YHR005BC", "gene_names_refseq": "MRS11; TIM10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The structural basis of the TIM10 chaperone assembly.", "journal": "The Journal of biological chemistry", "date": "2004-04-30", "authors": "Lu Hui, Golovanov Alexander P, Alcock Felicity, Grossmann J G\u00fcnter, Allen Scott, Lian Lu-Yun, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" } ] }, { "title": "Juxtaposition of the two distal CX3C motifs via intrachain disulfide bonding is essential for the folding of Tim10.", "journal": "The Journal of biological chemistry", "date": "2003-10-03", "authors": "Allen Scott, Lu Hui, Thornton David, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] } ], "crossref": [ { "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "AELDLVTDMFNKLVNNCYKK", "down_seq": "INTSYSEGELNKNESSCLDR", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Loss of function due to severely affected folding and the presence of non-native disulfide bonds; loss of zinc-binding.", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" }, { "database": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" }, { "database": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "40", "end_pos": "40" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P87108-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P87108-1.61.61", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P87108-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P87108-1", "length": 93, "uniprot_id": "TIM10_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM10", "refseq_ac": "NP_011869", "refseq_name": "protein transporter TIM10", "gene_name": "TIM10", "gene_names_uniprotkb": "TIM10; MRS11; YHR005BC", "gene_names_refseq": "MRS11; TIM10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The structural basis of the TIM10 chaperone assembly.", "journal": "The Journal of biological chemistry", "date": "2004-04-30", "authors": "Lu Hui, Golovanov Alexander P, Alcock Felicity, Grossmann J G\u00fcnter, Allen Scott, Lian Lu-Yun, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" } ] }, { "title": "Juxtaposition of the two distal CX3C motifs via intrachain disulfide bonding is essential for the folding of Tim10.", "journal": "The Journal of biological chemistry", "date": "2003-10-03", "authors": "Allen Scott, Lu Hui, Thornton David, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] } ], "crossref": [ { "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "YKKCINTSYSEGELNKNESS", "down_seq": "LDRCVAKYFETNVQVGENMQ", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Loss of function due to severely affected folding and the presence of non-native disulfide bonds; loss of zinc-binding.", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" }, { "database": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" }, { "database": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "40", "end_pos": "40" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P87108-1.44.44", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P87108-1.65.65", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P87108-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "P87108-1", "length": 93, "uniprot_id": "TIM10_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM10", "refseq_ac": "NP_011869", "refseq_name": "protein transporter TIM10", "gene_name": "TIM10", "gene_names_uniprotkb": "TIM10; MRS11; YHR005BC", "gene_names_refseq": "MRS11; TIM10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The structural basis of the TIM10 chaperone assembly.", "journal": "The Journal of biological chemistry", "date": "2004-04-30", "authors": "Lu Hui, Golovanov Alexander P, Alcock Felicity, Grossmann J G\u00fcnter, Allen Scott, Lian Lu-Yun, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" } ] }, { "title": "Juxtaposition of the two distal CX3C motifs via intrachain disulfide bonding is essential for the folding of Tim10.", "journal": "The Journal of biological chemistry", "date": "2003-10-03", "authors": "Allen Scott, Lu Hui, Thornton David, Tokatlidis Kostas", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "reference": [ { "type": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] } ], "crossref": [ { "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "INTSYSEGELNKNESSCLDR", "down_seq": "VAKYFETNVQVGENMQKMGQ", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Induces impairment in folding and loss of zinc-binding.", "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" }, { "database": "PubMed", "id": "14973126", "url": "https://glygen.org/publication/PubMed/14973126" }, { "database": "PubMed", "id": "12882976", "url": "https://glygen.org/publication/PubMed/12882976" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "40", "end_pos": "40" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P87108-1.61.61", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P87108-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P87108-1", "length": 93, "uniprot_id": "TIM10_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM10", "refseq_ac": "NP_011869", "refseq_name": "protein transporter TIM10", "gene_name": "TIM10", "gene_names_uniprotkb": "TIM10; MRS11; YHR005BC", "gene_names_refseq": "MRS11; TIM10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003530", "url": "https://www.yeastgenome.org/locus/S000003530", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "FLGFGGGQPQLSSQQKIQAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003530", "url": "https://www.yeastgenome.org/locus/S000003530" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "40", "end_pos": "40" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P87108-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P87108-1", "length": 93, "uniprot_id": "TIM10_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM10", "refseq_ac": "NP_011869", "refseq_name": "protein transporter TIM10", "gene_name": "TIM10", "gene_names_uniprotkb": "TIM10; MRS11; YHR005BC", "gene_names_refseq": "MRS11; TIM10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P87108", "url": "https://www.uniprot.org/uniprotkb/P87108" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003530", "url": "https://www.yeastgenome.org/locus/S000003530", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VAKYFETNVQVGENMQKMGQ", "down_seq": "FNAAGKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003530", "url": "https://www.yeastgenome.org/locus/S000003530" }, { "database": "iPTMnet", "id": "P87108", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P87108" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser86" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "40", "end_pos": "40" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "65", "end_pos": "65" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "86", "end_pos": "86" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.1013.1013", "start_pos": 1013, "end_pos": 1013, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KRSTKTKNSGESKRRKAAKK", "down_seq": "LSDSDEDDDDVVKKPSHNKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1013" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P89105-1.1015.1015", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P89105-1.1017.1017", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.1015.1015", "start_pos": 1015, "end_pos": 1015, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STKTKNSGESKRRKAAKKTL", "down_seq": "DSDEDDDDVVKKPSHNKGKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1015" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P89105-1.1013.1013", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P89105-1.1017.1017", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 17 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.1017.1017", "start_pos": 1017, "end_pos": 1017, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Asc1p/RACK1 Connects Ribosomes to Eukaryotic Phosphosignaling.", "journal": "Molecular and cellular biology", "date": "2017-02-01", "authors": "Schmitt Kerstin, Smolinski Nadine, Neumann Piotr, Schmaul Samantha, Hofer-Pretz Verena, Braus Gerhard H, Valerius Oliver", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTKNSGESKRRKAAKKTLSD", "down_seq": "DEDDDDVVKKPSHNKGKKSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1017" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P89105-1.1013.1013", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P89105-1.1015.1015", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 17 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.1046.1046", "start_pos": 1046, "end_pos": 1046, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKPSHNKGKKSQLSNEFIED", "down_seq": "DEEEAQMSGSEQNKNDDNDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1046" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P89105-1.1054.1054", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P89105-1.1056.1056", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.1054.1054", "start_pos": 1054, "end_pos": 1054, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKSQLSNEFIEDSDEEEAQM", "down_seq": "GSEQNKNDDNDENNDNDDND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1054" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P89105-1.1046.1046", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P89105-1.1056.1056", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.1056.1056", "start_pos": 1056, "end_pos": 1056, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SQLSNEFIEDSDEEEAQMSG", "down_seq": "EQNKNDDNDENNDNDDNDGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1056" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P89105-1.1046.1046", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P89105-1.1054.1054", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MTNAMKVEGYPSMEWP", "down_seq": "SLDIPLKASEELVGIDLETD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P89105-1.18.18", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.18.18", "start_pos": 18, "end_pos": 18, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTNAMKVEGYPSMEWPT", "down_seq": "LDIPLKASEELVGIDLETDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser18" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P89105-1.17.17", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.381.381", "start_pos": 381, "end_pos": 381, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FQESLKKNEDNLLAKLGLGQ", "down_seq": "QIKNNLLEESIITFENLYKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Thr381" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.560.560", "start_pos": 560, "end_pos": 560, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ITLEYNIARTNEKNDCEKSE", "down_seq": "IYSQVTSLHPAYIAARIRNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser560" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P89105-1.563.563", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.563.563", "start_pos": 563, "end_pos": 563, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EYNIARTNEKNDCEKSESIY", "down_seq": "QVTSLHPAYIAARIRNLYLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser563" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P89105-1.560.560", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.595.595", "start_pos": 595, "end_pos": 595, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ARIRNLYLKFAQSKIEDSDM", "down_seq": "TEMNKLLDLNKSDLEIRSFY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser595" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P89105-1.607.607", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.607.607", "start_pos": 607, "end_pos": 607, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKIEDSDMSTEMNKLLDLNK", "down_seq": "DLEIRSFYGWYLKNSKERKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser607" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P89105-1.595.595", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.907.907", "start_pos": 907, "end_pos": 907, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TMKSALERSLNEQEEFEKEQ", "down_seq": "AKIDEARKILEENELKEQGW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser907" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.966.966", "start_pos": 966, "end_pos": 966, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] } ], "crossref": [ { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YRKLQDEAQKLIQEREAMAI", "down_seq": "EHNVKDDSDLSDKDNEYDEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ], "site_lbl": "Ser966" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P89105-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P89105-1.977.977", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.974.974", "start_pos": 974, "end_pos": 974, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QKLIQEREAMAISEHNVKDD", "down_seq": "DLSDKDNEYDEEKPRQKRKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser974" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P89105-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P89105-1.977.977", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89105-1.977.977", "start_pos": 977, "end_pos": 977, "uniprot_canonical_ac": "P89105-1", "length": 1077, "uniprot_id": "CTR9_YEAST", "protein_name": "RNA polymerase-associated protein CTR9", "refseq_ac": "NP_014496", "refseq_name": "Ctr9p", "gene_name": "CTR9", "gene_names_uniprotkb": "CTR9; CDP1", "gene_names_refseq": "CDP1; CTR9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P89105", "url": "https://www.uniprot.org/uniprotkb/P89105" }, { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IQEREAMAISEHNVKDDSDL", "down_seq": "DKDNEYDEEKPRQKRKRSTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P89105", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89105" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000005505", "url": "https://www.yeastgenome.org/locus/S000005505" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser977" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1015", "end_pos": "1015" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "1046", "end_pos": "1046" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1056", "end_pos": "1056" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "18", "end_pos": "18" }, { "start_pos": "381", "end_pos": "381" }, { "start_pos": "560", "end_pos": "560" }, { "start_pos": "563", "end_pos": "563" }, { "start_pos": "595", "end_pos": "595" }, { "start_pos": "607", "end_pos": "607" }, { "start_pos": "907", "end_pos": "907" }, { "start_pos": "966", "end_pos": "966" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "977", "end_pos": "977" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P89105-1.966.966", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P89105-1.974.974", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1009.1009", "start_pos": 1009, "end_pos": 1009, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLEYLVEHAKATNHHLL", "down_seq": "DSAYEDLVKCKENPDMEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser1009" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1201.1201", "start_pos": 1201, "end_pos": 1201, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLAYLVEHAKATDHHLL", "down_seq": "DSAYEDLVKCKENPDVEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser1201" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1265.1265", "start_pos": 1265, "end_pos": 1265, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLAYLVEHAKATDHHLL", "down_seq": "DSAYEDLVKCKENPDMEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser1265" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1329.1329", "start_pos": 1329, "end_pos": 1329, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLEYLVEHAKATNHHLL", "down_seq": "DSAYEDLVKCKENPDMEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser1329" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSNEAKNEQIKSLKQIKESL", "down_seq": "DKIEELTNQKKSFMKELDST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1464.1464", "start_pos": 1464, "end_pos": 1464, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKGYHIIDTTTYNELVSNFN", "down_seq": "PTLKFIEEKAKSKGYRLIEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1464" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00402-1.1466.1466", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1466.1466", "start_pos": 1466, "end_pos": 1466, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GYHIIDTTTYNELVSNFNSP", "down_seq": "LKFIEEKAKSKGYRLIEPNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Thr1466" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00402-1.1464.1464", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1496.1496", "start_pos": 1496, "end_pos": 1496, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SKGYRLIEPNEYLDLNRIAT", "down_seq": "PSKEEIDNFCKQIGCYALDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1496" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1595.1595", "start_pos": 1595, "end_pos": 1595, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TMPAPQLASAEKSSLQKRTL", "down_seq": "DIENELKALGYVAIRKENLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1595" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1727.1727", "start_pos": 1727, "end_pos": 1727, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ALGYELVSEVELDRMKQMID", "down_seq": "PDIDYMQEKAARNEMVLLRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1727" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "Q00402-1.1732.1732", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1732.1732", "start_pos": 1732, "end_pos": 1732, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LVSEVELDRMKQMIDSPDID", "down_seq": "MQEKAARNEMVLLRNEEKEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Tyr1732" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00402-1.1727.1727", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.1921.1921", "start_pos": 1921, "end_pos": 1921, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DHIVVPLSEYNLMVTNYRNP", "down_seq": "LSYLKEKAVLNNHILIKEDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1921" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.206.206", "start_pos": 206, "end_pos": 206, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KSWNDEKESLKLLKTDLEIL", "down_seq": "LTKNGMENDLSSQKLHYDKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr206" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00402-1.208.208", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2078.2078", "start_pos": 2078, "end_pos": 2078, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AIFDSIIVENIEYQQLVNTT", "down_seq": "PCPPITYEDLKVYAHQFGME", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2078" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.208.208", "start_pos": 208, "end_pos": 208, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "WNDEKESLKLLKTDLEILTL", "down_seq": "KNGMENDLSSQKLHYDKEIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr208" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00402-1.206.206", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2157.2157", "start_pos": 2157, "end_pos": 2157, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "DALDDNIEELNRVELQNNED", "down_seq": "TDIISKSSTVKDATIFIPAY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr2157" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00402-1.2158.2158", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00402-1.2162.2162", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2158.2158", "start_pos": 2158, "end_pos": 2158, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ALDDNIEELNRVELQNNEDY", "down_seq": "DIISKSSTVKDATIFIPAYE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr2158" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00402-1.2157.2157", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00402-1.2162.2162", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2162.2162", "start_pos": 2162, "end_pos": 2162, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NIEELNRVELQNNEDYTDII", "down_seq": "KSSTVKDATIFIPAYENIKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2162" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00402-1.2157.2157", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00402-1.2158.2158", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2164.2164", "start_pos": 2164, "end_pos": 2164, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EELNRVELQNNEDYTDIISK", "down_seq": "STVKDATIFIPAYENIKNSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Ser2164" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q00402-1.2157.2157", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00402-1.2158.2158", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00402-1.2162.2162", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00402-1.2183.2183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2165.2165", "start_pos": 2165, "end_pos": 2165, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ELNRVELQNNEDYTDIISKS", "down_seq": "TVKDATIFIPAYENIKNSAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2165" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00402-1.2157.2157", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00402-1.2158.2158", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.2162.2162", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00402-1.2183.2183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2166.2166", "start_pos": 2166, "end_pos": 2166, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LNRVELQNNEDYTDIISKSS", "down_seq": "VKDATIFIPAYENIKNSAEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr2166" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00402-1.2157.2157", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00402-1.2158.2158", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00402-1.2162.2162", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00402-1.2183.2183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2171.2171", "start_pos": 2171, "end_pos": 2171, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LQNNEDYTDIISKSSTVKDA", "down_seq": "IFIPAYENIKNSAEKLGYKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr2171" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00402-1.2157.2157", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q00402-1.2158.2158", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00402-1.2162.2162", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00402-1.2183.2183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2183.2183", "start_pos": 2183, "end_pos": 2183, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSSTVKDATIFIPAYENIKN", "down_seq": "AEKLGYKLVPFEKSNINLKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2183" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00402-1.2164.2164", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q00402-1.2165.2165", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q00402-1.2166.2166", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00402-1.2171.2171", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00402-1.2197.2197", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2197.2197", "start_pos": 2197, "end_pos": 2197, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YENIKNSAEKLGYKLVPFEK", "down_seq": "NINLKNIEAPLFSKDNDDTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2197" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00402-1.2183.2183", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00402-1.2216.2216", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00402-1.2217.2217", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2216.2216", "start_pos": 2216, "end_pos": 2216, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KSNINLKNIEAPLFSKDNDD", "down_seq": "SVASSIDLDHLSRKAEKYGM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr2216" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00402-1.2197.2197", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00402-1.2217.2217", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00402-1.2220.2220", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00402-1.2221.2221", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00402-1.2228.2228", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2217.2217", "start_pos": 2217, "end_pos": 2217, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNINLKNIEAPLFSKDNDDT", "down_seq": "VASSIDLDHLSRKAEKYGMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2217" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00402-1.2197.2197", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00402-1.2216.2216", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2220.2220", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00402-1.2221.2221", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00402-1.2228.2228", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2220.2220", "start_pos": 2220, "end_pos": 2220, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NLKNIEAPLFSKDNDDTSVA", "down_seq": "SIDLDHLSRKAEKYGMTLIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2220" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q00402-1.2216.2216", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.2217.2217", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00402-1.2221.2221", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00402-1.2228.2228", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2221.2221", "start_pos": 2221, "end_pos": 2221, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKNIEAPLFSKDNDDTSVAS", "down_seq": "IDLDHLSRKAEKYGMTLISD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2221" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00402-1.2216.2216", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00402-1.2217.2217", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00402-1.2220.2220", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2228.2228", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2228.2228", "start_pos": 2228, "end_pos": 2228, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LFSKDNDDTSVASSIDLDHL", "down_seq": "RKAEKYGMTLISDQEFEEYH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Ser2228" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00402-1.2216.2216", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00402-1.2217.2217", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00402-1.2220.2220", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00402-1.2221.2221", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2328.2328", "start_pos": 2328, "end_pos": 2328, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PTFTVRQLKKPAGDRNLILT", "down_seq": "REKTLLSRDDNIMSQNEAVY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2328" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "Q00402-1.2348.2348", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2348.2348", "start_pos": 2348, "end_pos": 2348, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SREKTLLSRDDNIMSQNEAV", "down_seq": "GDDISDSFVDESQEIKNDVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr2348" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00402-1.2328.2328", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00402-1.2353.2353", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2355.2355", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00402-1.2360.2360", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2353.2353", "start_pos": 2353, "end_pos": 2353, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLSRDDNIMSQNEAVYGDDI", "down_seq": "DSFVDESQEIKNDVDIIKTQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2353" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00402-1.2348.2348", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00402-1.2355.2355", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2360.2360", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2355.2355", "start_pos": 2355, "end_pos": 2355, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRDDNIMSQNEAVYGDDISD", "down_seq": "FVDESQEIKNDVDIIKTQAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2355" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q00402-1.2348.2348", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00402-1.2353.2353", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00402-1.2360.2360", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2360.2360", "start_pos": 2360, "end_pos": 2360, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IMSQNEAVYGDDISDSFVDE", "down_seq": "QEIKNDVDIIKTQAMKYGML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser2360" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00402-1.2348.2348", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00402-1.2353.2353", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00402-1.2355.2355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HNNRHKKNNDKDSSAGQYAN", "down_seq": "IDNSLSQESVSTNGVTRMAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser23" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "Q00402-1.32.32", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2407.2407", "start_pos": 2407, "end_pos": 2407, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FVGASYASAQDMSDIVVLSA", "down_seq": "YYHNLMSPEDMKWNCVSNEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser2407" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "Q00402-1.2424.2424", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2424.2424", "start_pos": 2424, "end_pos": 2424, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSASYYHNLMSPEDMKWNCV", "down_seq": "NEELQAEVKKRGLQIALTTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2424" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00402-1.2407.2407", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2468.2468", "start_pos": 2468, "end_pos": 2468, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGQATASKHEYVSHKLNNKT", "down_seq": "TVSTKSGAKKGLAEAAATTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2468" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00402-1.2469.2469", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2471.2471", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.2474.2474", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2469.2469", "start_pos": 2469, "end_pos": 2469, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GQATASKHEYVSHKLNNKTS", "down_seq": "VSTKSGAKKGLAEAAATTAY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Thr2469" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00402-1.2468.2468", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00402-1.2471.2471", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00402-1.2474.2474", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2471.2471", "start_pos": 2471, "end_pos": 2471, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2007", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ATASKHEYVSHKLNNKTSTV", "down_seq": "TKSGAKKGLAEAAATTAYED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2471" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00402-1.2468.2468", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00402-1.2469.2469", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2474.2474", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2474.2474", "start_pos": 2474, "end_pos": 2474, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKHEYVSHKLNNKTSTVSTK", "down_seq": "GAKKGLAEAAATTAYEDSES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2474" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00402-1.2468.2468", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00402-1.2469.2469", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.2471.2471", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00402-1.2492.2492", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00402-1.2494.2494", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2486.2486", "start_pos": 2486, "end_pos": 2486, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KTSTVSTKSGAKKGLAEAAA", "down_seq": "TAYEDSESHPQIEEQSHRTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr2486" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00402-1.2468.2468", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q00402-1.2469.2469", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q00402-1.2471.2471", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00402-1.2474.2474", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.2492.2492", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00402-1.2494.2494", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00402-1.2502.2502", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2492.2492", "start_pos": 2492, "end_pos": 2492, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKSGAKKGLAEAAATTAYED", "down_seq": "ESHPQIEEQSHRTNHHKHHK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2492" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00402-1.2474.2474", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00402-1.2494.2494", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00402-1.2502.2502", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2494.2494", "start_pos": 2494, "end_pos": 2494, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SGAKKGLAEAAATTAYEDSE", "down_seq": "HPQIEEQSHRTNHHKHHKRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2494" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00402-1.2474.2474", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00402-1.2492.2492", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00402-1.2502.2502", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2502.2502", "start_pos": 2502, "end_pos": 2502, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EAAATTAYEDSESHPQIEEQ", "down_seq": "HRTNHHKHHKRQQSLNSNST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser2502" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00402-1.2486.2486", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00402-1.2492.2492", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00402-1.2494.2494", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00402-1.2516.2516", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00402-1.2519.2519", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00402-1.2522.2522", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2516.2516", "start_pos": 2516, "end_pos": 2516, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQIEEQSHRTNHHKHHKRQQ", "down_seq": "LNSNSTSKTTHSSRNTPASR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2516" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00402-1.2502.2502", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2519.2519", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.2522.2522", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00402-1.2528.2528", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00402-1.2529.2529", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2519.2519", "start_pos": 2519, "end_pos": 2519, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEQSHRTNHHKHHKRQQSLN", "down_seq": "NSTSKTTHSSRNTPASRRDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2519" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00402-1.2502.2502", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.2516.2516", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2522.2522", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00402-1.2528.2528", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00402-1.2529.2529", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2522.2522", "start_pos": 2522, "end_pos": 2522, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SHRTNHHKHHKRQQSLNSNS", "down_seq": "SKTTHSSRNTPASRRDIVAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr2522" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00402-1.2502.2502", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00402-1.2516.2516", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.2519.2519", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.2528.2528", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.2529.2529", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00402-1.2542.2542", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2528.2528", "start_pos": 2528, "end_pos": 2528, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HKHHKRQQSLNSNSTSKTTH", "down_seq": "SRNTPASRRDIVASFMSRAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2528" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00402-1.2516.2516", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00402-1.2519.2519", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00402-1.2522.2522", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00402-1.2529.2529", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00402-1.2542.2542", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00402-1.2545.2545", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2529.2529", "start_pos": 2529, "end_pos": 2529, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KHHKRQQSLNSNSTSKTTHS", "down_seq": "RNTPASRRDIVASFMSRAGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2529" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00402-1.2516.2516", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00402-1.2519.2519", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00402-1.2522.2522", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00402-1.2528.2528", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00402-1.2542.2542", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00402-1.2545.2545", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2542.2542", "start_pos": 2542, "end_pos": 2542, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TSKTTHSSRNTPASRRDIVA", "down_seq": "FMSRAGSASRTASLQTLASL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2542" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00402-1.2522.2522", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00402-1.2528.2528", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q00402-1.2529.2529", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.2545.2545", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2545.2545", "start_pos": 2545, "end_pos": 2545, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTHSSRNTPASRRDIVASFM", "down_seq": "RAGSASRTASLQTLASLNEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser2545" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00402-1.2528.2528", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q00402-1.2529.2529", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.2542.2542", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2658.2658", "start_pos": 2658, "end_pos": 2658, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TDPNPYPTGLYHKSIVVTTE", "down_seq": "RTIKFTCPTRQRHNIWYNSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Thr2658" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2690.2690", "start_pos": 2690, "end_pos": 2690, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RHNIWYNSLRYLLQRNMQGI", "down_seq": "LEDIADDPTDNMYSGKIFPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2690" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2723.2723", "start_pos": 2723, "end_pos": 2723, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YSGKIFPLPGENTKSSSKRL", "down_seq": "ASRRSVSTRSLRHRVPQSRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser2723" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "Q00402-1.2743.2743", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.2743.2743", "start_pos": 2743, "end_pos": 2743, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SASRRSVSTRSLRHRVPQSR", "down_seq": "FGNLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ], "site_lbl": "Ser2743" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00402-1.2723.2723", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKDSSAGQYANSIDNSLSQE", "down_seq": "VSTNGVTRMANLKADECGSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00402-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00402-1.51.51", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.357.357", "start_pos": 357, "end_pos": 357, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEDLVKKYSEKNNMILLSND", "down_seq": "YKNLLQKSESASKPKDDELM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser357" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00402-1.358.358", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00402-1.367.367", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.358.358", "start_pos": 358, "end_pos": 358, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EDLVKKYSEKNNMILLSNDS", "down_seq": "KNLLQKSESASKPKDDELMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr358" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00402-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00402-1.367.367", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.367.367", "start_pos": 367, "end_pos": 367, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNNMILLSNDSYKNLLQKSE", "down_seq": "ASKPKDDELMTKEVAENLNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser367" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00402-1.357.357", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00402-1.358.358", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESVSTNGVTRMANLKADECG", "down_seq": "GDEGDKTKRFSISSILSKRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser51" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00402-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00402-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00402-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00402-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00402-1.68.68", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VSPSLEYLVEHAKATNHHLL", "down_seq": "DSAYEDLVKCKENPDMEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Ser611" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00402-1.613.613", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.613.613", "start_pos": 613, "end_pos": 613, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSLEYLVEHAKATNHHLLSD", "down_seq": "AYEDLVKCKENPDMEFLKEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Ser613" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00402-1.611.611", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.62.62", "start_pos": 62, "end_pos": 62, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANLKADECGSGDEGDKTKRF", "down_seq": "ISSILSKRETKDVLPEFAGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser62" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00402-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00402-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00402-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00402-1.72.72", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.648.648", "start_pos": 648, "end_pos": 648, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EFLKEKSAKLGHTVVSNEAY", "down_seq": "ELEKKLEQPSLEYLVEHAKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser648" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "Q00402-1.658.658", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKADECGSGDEGDKTKRFSI", "down_seq": "SILSKRETKDVLPEFAGSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00402-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00402-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00402-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00402-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00402-1.72.72", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.658.658", "start_pos": 658, "end_pos": 658, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GHTVVSNEAYSELEKKLEQP", "down_seq": "LEYLVEHAKATNHHLLSDSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser658" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00402-1.648.648", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00402-1.675.675", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.65.65", "start_pos": 65, "end_pos": 65, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KADECGSGDEGDKTKRFSIS", "down_seq": "ILSKRETKDVLPEFAGSSSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Ser65" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00402-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00402-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00402-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00402-1.72.72", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.675.675", "start_pos": 675, "end_pos": 675, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLEYLVEHAKATNHHLL", "down_seq": "DSAYEDLVKCKENPDMEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser675" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00402-1.658.658", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.68.68", "start_pos": 68, "end_pos": 68, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ECGSGDEGDKTKRFSISSIL", "down_seq": "KRETKDVLPEFAGSSSHNGV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" } ], "site_lbl": "Ser68" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00402-1.51.51", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00402-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00402-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00402-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00402-1.72.72", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.719.719", "start_pos": 719, "end_pos": 719, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKLGHTVVSNEAYSELQRKY", "down_seq": "ELEKEVEQPSLAYLVEHAKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser719" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GDEGDKTKRFSISSILSKRE", "down_seq": "KDVLPEFAGSSSHNGVLTAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr72" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00402-1.62.62", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00402-1.64.64", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00402-1.65.65", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00402-1.68.68", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.746.746", "start_pos": 746, "end_pos": 746, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLAYLVEHAKATDHHLL", "down_seq": "DSAYEDLVKCKENPDVEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser746" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00402-1.748.748", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.748.748", "start_pos": 748, "end_pos": 748, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSLAYLVEHAKATDHHLLSD", "down_seq": "AYEDLVKCKENPDVEFLKEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser748" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00402-1.746.746", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.864.864", "start_pos": 864, "end_pos": 864, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GHTVVSNEAYSELEKKLEQP", "down_seq": "LAYLVEHAKATDHHLLSDSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002557", "url": "https://www.yeastgenome.org/locus/S000002557" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser864" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "Q00402-1.881.881", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.881.881", "start_pos": 881, "end_pos": 881, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLAYLVEHAKATDHHLL", "down_seq": "DSAYEDLVKCKENSDVEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser881" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00402-1.864.864", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00402-1.945.945", "start_pos": 945, "end_pos": 945, "uniprot_canonical_ac": "Q00402-1", "length": 2748, "uniprot_id": "NUM1_YEAST", "protein_name": "Nuclear migration protein NUM1", "refseq_ac": "NP_010434", "refseq_name": "Num1p", "gene_name": "NUM1", "gene_names_uniprotkb": "NUM1; PAC12; YD8358.06", "gene_names_refseq": "NUM1; PAC12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQPSLAYLVEHAKATDHHLL", "down_seq": "DSAYEDLVKCKENPDMEFLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00402", "url": "https://www.uniprot.org/uniprotkb/Q00402" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00402", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00402" } ], "site_lbl": "Ser945" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1201", "end_pos": "1201" }, { "start_pos": "1265", "end_pos": "1265" }, { "start_pos": "1329", "end_pos": "1329" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "1464", "end_pos": "1464" }, { "start_pos": "1466", "end_pos": "1466" }, { "start_pos": "1496", "end_pos": "1496" }, { "start_pos": "1595", "end_pos": "1595" }, { "start_pos": "1727", "end_pos": "1727" }, { "start_pos": "1732", "end_pos": "1732" }, { "start_pos": "1921", "end_pos": "1921" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "2078", "end_pos": "2078" }, { "start_pos": "208", "end_pos": "208" }, { "start_pos": "2157", "end_pos": "2157" }, { "start_pos": "2158", "end_pos": "2158" }, { "start_pos": "2162", "end_pos": "2162" }, { "start_pos": "2164", "end_pos": "2164" }, { "start_pos": "2165", "end_pos": "2165" }, { "start_pos": "2166", "end_pos": "2166" }, { "start_pos": "2171", "end_pos": "2171" }, { "start_pos": "2183", "end_pos": "2183" }, { "start_pos": "2197", "end_pos": "2197" }, { "start_pos": "2216", "end_pos": "2216" }, { "start_pos": "2217", "end_pos": "2217" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "2221", "end_pos": "2221" }, { "start_pos": "2228", "end_pos": "2228" }, { "start_pos": "2328", "end_pos": "2328" }, { "start_pos": "2348", "end_pos": "2348" }, { "start_pos": "2353", "end_pos": "2353" }, { "start_pos": "2355", "end_pos": "2355" }, { "start_pos": "2360", "end_pos": "2360" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "2407", "end_pos": "2407" }, { "start_pos": "2424", "end_pos": "2424" }, { "start_pos": "2468", "end_pos": "2468" }, { "start_pos": "2469", "end_pos": "2469" }, { "start_pos": "2471", "end_pos": "2471" }, { "start_pos": "2474", "end_pos": "2474" }, { "start_pos": "2486", "end_pos": "2486" }, { "start_pos": "2492", "end_pos": "2492" }, { "start_pos": "2494", "end_pos": "2494" }, { "start_pos": "2502", "end_pos": "2502" }, { "start_pos": "2516", "end_pos": "2516" }, { "start_pos": "2519", "end_pos": "2519" }, { "start_pos": "2522", "end_pos": "2522" }, { "start_pos": "2528", "end_pos": "2528" }, { "start_pos": "2529", "end_pos": "2529" }, { "start_pos": "2542", "end_pos": "2542" }, { "start_pos": "2545", "end_pos": "2545" }, { "start_pos": "2658", "end_pos": "2658" }, { "start_pos": "2690", "end_pos": "2690" }, { "start_pos": "2723", "end_pos": "2723" }, { "start_pos": "2743", "end_pos": "2743" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "357", "end_pos": "357" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "613", "end_pos": "613" }, { "start_pos": "62", "end_pos": "62" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "65", "end_pos": "65" }, { "start_pos": "675", "end_pos": "675" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "719", "end_pos": "719" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "748", "end_pos": "748" }, { "start_pos": "864", "end_pos": "864" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "945", "end_pos": "945" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.2207.2207", "start_pos": 2207, "end_pos": 2207, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DLNPHPQPQSSAFKGPGSGP", "down_seq": "GTRNSSRRNASSSPFIPKKR", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr2207", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "Q00416-1.2218.2218", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00416-1.2220.2220", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q00416-1.1597.1597", "start_pos": 1597, "end_pos": 1597, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase.", "journal": "Molecular cell", "date": "2006-12-08", "authors": "Steinmetz Eric J, Warren Christopher L, Kuehner Jason N, Panbehi Bahman, Ansari Aseem Z, Brow David A", "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "reference": [ { "type": "PubMed", "id": "17157256", "url": "https://glygen.org/publication/PubMed/17157256" } ] } ], "crossref": [ { "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17157256", "url": "https://glygen.org/publication/PubMed/17157256", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "LATMGIKFDTVIIDEACQCT", "down_seq": "LSSIIPLRYGGKRCIMVGDP", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "K", "comment": "Causes read-through of both a snoRNA gene terminator and the poly(A) site of a protein-coding gene.", "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" }, { "database": "PubMed", "id": "17157256", "url": "https://glygen.org/publication/PubMed/17157256" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1747.1747", "start_pos": 1747, "end_pos": 1747, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The putative nucleic acid helicase Sen1p is required for formation and stability of termini and for maximal rates of synthesis and levels of accumulation of small nucleolar RNAs in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "1998-12", "authors": "Rasmussen T P, Culbertson M R", "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "reference": [ { "type": "PubMed", "id": "9819377", "url": "https://glygen.org/publication/PubMed/9819377" } ] }, { "title": "The yeast SEN1 gene is required for the processing of diverse RNA classes.", "journal": "Nucleic acids research", "date": "1997-12-01", "authors": "Ursic D, Himmel K L, Gurley K A, Webb F, Culbertson M R", "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "reference": [ { "type": "PubMed", "id": "9365256", "url": "https://glygen.org/publication/PubMed/9365256" } ] }, { "title": "SEN1, a positive effector of tRNA-splicing endonuclease in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "1992-05", "authors": "DeMarini D J, Winey M, Ursic D, Webb F, Culbertson M R", "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "reference": [ { "type": "PubMed", "id": "1569945", "url": "https://glygen.org/publication/PubMed/1569945" } ] } ], "crossref": [ { "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9819377", "url": "https://glygen.org/publication/PubMed/9819377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "9365256", "url": "https://glygen.org/publication/PubMed/9365256", "database": "PubMed", "categories": [ "Other" ] }, { "id": "1569945", "url": "https://glygen.org/publication/PubMed/1569945", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "ELVDYLFRKFDNKIDFTGKI", "down_seq": "IISPYREQMQKMRKEFARYF", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "In SEN1-1; gives rise to a temperature-sensitive mutant. Alters the cellular abundance of many RNA species, impairs rRNA precursor maturation.", "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" }, { "database": "PubMed", "id": "9819377", "url": "https://glygen.org/publication/PubMed/9819377" }, { "database": "PubMed", "id": "9365256", "url": "https://glygen.org/publication/PubMed/9365256" }, { "database": "PubMed", "id": "1569945", "url": "https://glygen.org/publication/PubMed/1569945" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1047.1047", "start_pos": 1047, "end_pos": 1047, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNRVVHPPSAPAFHTKSRGL", "down_seq": "NKNDDSSSEESDNDIESARE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1047" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q00416-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00416-1.1054.1054", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00416-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00416-1.1058.1058", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1053.1053", "start_pos": 1053, "end_pos": 1053, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PPSAPAFHTKSRGLSNKNDD", "down_seq": "SSEESDNDIESARELFAIAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1053" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00416-1.1047.1047", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00416-1.1054.1054", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00416-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00416-1.1058.1058", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1054.1054", "start_pos": 1054, "end_pos": 1054, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSAPAFHTKSRGLSNKNDDS", "down_seq": "SEESDNDIESARELFAIAKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1054" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q00416-1.1047.1047", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00416-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00416-1.1055.1055", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00416-1.1058.1058", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1055.1055", "start_pos": 1055, "end_pos": 1055, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SAPAFHTKSRGLSNKNDDSS", "down_seq": "EESDNDIESARELFAIAKAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1055" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00416-1.1047.1047", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00416-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00416-1.1054.1054", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00416-1.1058.1058", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1058.1058", "start_pos": 1058, "end_pos": 1058, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AFHTKSRGLSNKNDDSSSEE", "down_seq": "DNDIESARELFAIAKAKGKG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1058" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00416-1.1047.1047", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00416-1.1053.1053", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00416-1.1054.1054", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00416-1.1055.1055", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1212.1212", "start_pos": 1212, "end_pos": 1212, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Modulated termination of non-coding transcription partakes in the regulation of gene expression.", "journal": "Nucleic acids research", "date": "2022-02-22", "authors": "Haidara Nouhou, Giannini Marta, Porrua Odil", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDFYDVYASVAKQVIQDCGI", "down_seq": "ESDLIVMAYLPDFRPDKRLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ], "site_lbl": "Ser1212" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00416-1.1214.1214", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1214.1214", "start_pos": 1214, "end_pos": 1214, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Modulated termination of non-coding transcription partakes in the regulation of gene expression.", "journal": "Nucleic acids research", "date": "2022-02-22", "authors": "Haidara Nouhou, Giannini Marta, Porrua Odil", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FYDVYASVAKQVIQDCGISE", "down_seq": "DLIVMAYLPDFRPDKRLSSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ], "site_lbl": "Ser1214" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00416-1.1212.1212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1382.1382", "start_pos": 1382, "end_pos": 1382, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GKTKTILGIIGYFLSTKNAS", "down_seq": "SNVIKVPLEKNSSNTEQLLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1382" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00416-1.1383.1383", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1383.1383", "start_pos": 1383, "end_pos": 1383, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTKTILGIIGYFLSTKNASS", "down_seq": "NVIKVPLEKNSSNTEQLLKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1383" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00416-1.1382.1382", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1487.1487", "start_pos": 1487, "end_pos": 1487, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ERNYEIRTDPELERKFNNAV", "down_seq": "KRRELRGKLDSESGNPESPM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr1487" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "Q00416-1.1505.1505", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1505.1505", "start_pos": 1505, "end_pos": 1505, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AVTKRRELRGKLDSESGNPE", "down_seq": "PMSTEDISKLQLKIRELSKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1505" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00416-1.1487.1487", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00416-1.1508.1508", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00416-1.1513.1513", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1508.1508", "start_pos": 1508, "end_pos": 1508, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRRELRGKLDSESGNPESPM", "down_seq": "TEDISKLQLKIRELSKIINE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1508" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00416-1.1505.1505", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00416-1.1513.1513", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1513.1513", "start_pos": 1513, "end_pos": 1513, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RGKLDSESGNPESPMSTEDI", "down_seq": "KLQLKIRELSKIINELGRDR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1513" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00416-1.1505.1505", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00416-1.1508.1508", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1623.1623", "start_pos": 1623, "end_pos": 1623, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Modulated termination of non-coding transcription partakes in the regulation of gene expression.", "journal": "Nucleic acids research", "date": "2022-02-22", "authors": "Haidara Nouhou, Giannini Marta, Porrua Odil", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PLRYGGKRCIMVGDPNQLPP", "down_seq": "VLSGAASNFKYNQSLFVRME", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ], "site_lbl": "Thr1623" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.1951.1951", "start_pos": 1951, "end_pos": 1951, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKEKKKSKADDKKKNNKKAE", "down_seq": "PSTSSGTKKKSSIFGGMSVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1951" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.2038.2038", "start_pos": 2038, "end_pos": 2038, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IKVTRSLSSVLKEKQLGLKE", "down_seq": "RTISPPEISNNEDDDDEDDY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr2038" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.2218.2218", "start_pos": 2218, "end_pos": 2218, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AFKGPGSGPTGTRNSSRRNA", "down_seq": "SSPFIPKKRKPRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser2218" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00416-1.2207.2207", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00416-1.2220.2220", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.2220.2220", "start_pos": 2220, "end_pos": 2220, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGPGSGPTGTRNSSRRNASS", "down_seq": "PFIPKKRKPRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser2220" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00416-1.2207.2207", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00416-1.2218.2218", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.465.465", "start_pos": 465, "end_pos": 465, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MVRKVSMAFLRIIANYPSLK", "down_seq": "IPKACLMNSATALLRAVLTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser465" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "Q00416-1.474.474", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.474.474", "start_pos": 474, "end_pos": 474, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Modulated termination of non-coding transcription partakes in the regulation of gene expression.", "journal": "Nucleic acids research", "date": "2022-02-22", "authors": "Haidara Nouhou, Giannini Marta, Porrua Odil", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRIIANYPSLKSIPKACLMN", "down_seq": "ATALLRAVLTIKENERAMLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ], "site_lbl": "Ser474" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00416-1.465.465", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.666.666", "start_pos": 666, "end_pos": 666, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Modulated termination of non-coding transcription partakes in the regulation of gene expression.", "journal": "Nucleic acids research", "date": "2022-02-22", "authors": "Haidara Nouhou, Giannini Marta, Porrua Odil", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKFADILPGQLSKILADEDA", "down_seq": "QGFWSCIFSSDKHLYQAATN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "35037029", "url": "https://glygen.org/publication/PubMed/35037029" } ], "site_lbl": "Ser666" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.863.863", "start_pos": 863, "end_pos": 863, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LYWLRLSDEVLLESCVRLII", "down_seq": "TSDLAHEKHVKVDDSLVEMM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser863" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.949.949", "start_pos": 949, "end_pos": 949, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KEKELSRLGKVIDLTDSVPA", "down_seq": "PSLSPSLSSTIASSSAESRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser949" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00416-1.951.951", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00416-1.953.953", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.951.951", "start_pos": 951, "end_pos": 951, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KELSRLGKVIDLTDSVPASP", "down_seq": "LSPSLSSTIASSSAESRADY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser951" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00416-1.949.949", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00416-1.953.953", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00416-1.953.953", "start_pos": 953, "end_pos": 953, "uniprot_canonical_ac": "Q00416-1", "length": 2231, "uniprot_id": "SEN1_YEAST", "protein_name": "Helicase SEN1", "refseq_ac": "NP_013534", "refseq_name": "DNA/RNA helicase SEN1", "gene_name": "SEN1", "gene_names_uniprotkb": "SEN1; L9576.1", "gene_names_refseq": "CIK3; NRD2; SEN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00416", "url": "https://www.uniprot.org/uniprotkb/Q00416" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSRLGKVIDLTDSVPASPSL", "down_seq": "PSLSSTIASSSAESRADYLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004422", "url": "https://www.yeastgenome.org/locus/S000004422" }, { "database": "iPTMnet", "id": "Q00416", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00416" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser953" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2207", "end_pos": "2207" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1597", "end_pos": "1597" }, { "start_pos": "1747", "end_pos": "1747" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1047", "end_pos": "1047" }, { "start_pos": "1053", "end_pos": "1053" }, { "start_pos": "1054", "end_pos": "1054" }, { "start_pos": "1055", "end_pos": "1055" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "1214", "end_pos": "1214" }, { "start_pos": "1382", "end_pos": "1382" }, { "start_pos": "1383", "end_pos": "1383" }, { "start_pos": "1487", "end_pos": "1487" }, { "start_pos": "1505", "end_pos": "1505" }, { "start_pos": "1508", "end_pos": "1508" }, { "start_pos": "1513", "end_pos": "1513" }, { "start_pos": "1623", "end_pos": "1623" }, { "start_pos": "1951", "end_pos": "1951" }, { "start_pos": "2038", "end_pos": "2038" }, { "start_pos": "2218", "end_pos": "2218" }, { "start_pos": "2220", "end_pos": "2220" }, { "start_pos": "465", "end_pos": "465" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "949", "end_pos": "949" }, { "start_pos": "951", "end_pos": "951" }, { "start_pos": "953", "end_pos": "953" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q00416-1.949.949", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00416-1.951.951", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdc14 phosphatase reveals diverse roles in mitotic processes.", "journal": "The Journal of biological chemistry", "date": "2011-02-18", "authors": "Bloom Joanna, Cristea Ileana M, Procko Andrea L, Lubkov Veronica, Chait Brian T, Snyder Michael, Cross Frederick R", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "reference": [ { "type": "PubMed", "id": "21127052", "url": "https://glygen.org/publication/PubMed/21127052" } ] } ], "crossref": [ { "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21127052", "url": "https://glygen.org/publication/PubMed/21127052", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "LYNKKHFEDIGIQHLDLIFE", "down_seq": "GTCPDLSIVKNFVGAAETII", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Inactivates catalytic activity and leads to substrate retention.", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "PubMed", "id": "21127052", "url": "https://glygen.org/publication/PubMed/21127052" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "Q00684-1.271.271", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.280.280", "start_pos": 280, "end_pos": 280, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Functions of the mitotic B-type cyclins CLB1, CLB2, and CLB3 at mitotic exit antagonized by the CDC14 phosphatase.", "journal": "Fungal genetics and biology : FG & B", "date": "2011-10", "authors": "Tzeng Yao-Wei, Huang James N, Schuyler Scott C, Wu Chun-Hao, Juang Yue-Li", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "reference": [ { "type": "PubMed", "id": "21784165", "url": "https://glygen.org/publication/PubMed/21784165" } ] } ], "crossref": [ { "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21784165", "url": "https://glygen.org/publication/PubMed/21784165", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "SIVKNFVGAAETIIKRGGKI", "down_seq": "VHCKAGLGRTGCLIGAHLIY", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "V", "comment": "Leads to temperature sensitivity.", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "PubMed", "id": "21784165", "url": "https://glygen.org/publication/PubMed/21784165" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00684-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00684-1.283.283", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.283.283", "start_pos": 283, "end_pos": 283, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdc14 phosphatase reveals diverse roles in mitotic processes.", "journal": "The Journal of biological chemistry", "date": "2011-02-18", "authors": "Bloom Joanna, Cristea Ileana M, Procko Andrea L, Lubkov Veronica, Chait Brian T, Snyder Michael, Cross Frederick R", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "reference": [ { "type": "PubMed", "id": "21127052", "url": "https://glygen.org/publication/PubMed/21127052" } ] } ], "crossref": [ { "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21127052", "url": "https://glygen.org/publication/PubMed/21127052", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "KNFVGAAETIIKRGGKIAVH", "down_seq": "KAGLGRTGCLIGAHLIYTYG", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Inactivates catalytic activity and leads to substrate retention.", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "PubMed", "id": "21127052", "url": "https://glygen.org/publication/PubMed/21127052" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00684-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00684-1.280.280", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FEDGTCPDLSIVKNFVGAAE", "down_seq": "IIKRGGKIAVHCKAGLGRTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr271" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00684-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00684-1.280.280", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.283.283", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.391.391", "start_pos": 391, "end_pos": 391, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KLKDDKRVAQNNIEGELRDL", "down_seq": "MTPPSNGHGALSARNSSQPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr391" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00684-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00684-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KDDKRVAQNNIEGELRDLTM", "down_seq": "PPSNGHGALSARNSSQPSTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr393" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00684-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00684-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRVAQNNIEGELRDLTMTPP", "down_seq": "NGHGALSARNSSQPSTANNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser396" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00684-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00684-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.407.407", "start_pos": 407, "end_pos": 407, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRDLTMTPPSNGHGALSARN", "down_seq": "SQPSTANNGSNSFKSSAVPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser407" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00684-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00684-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.408.408", "start_pos": 408, "end_pos": 408, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RDLTMTPPSNGHGALSARNS", "down_seq": "QPSTANNGSNSFKSSAVPQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser408" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00684-1.391.391", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q00684-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00684-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MTPPSNGHGALSARNSSQPS", "down_seq": "ANNGSNSFKSSAVPQTSPGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr412" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00684-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q00684-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00684-1.429.429", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.417.417", "start_pos": 417, "end_pos": 417, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NGHGALSARNSSQPSTANNG", "down_seq": "NSFKSSAVPQTSPGQPRKGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser417" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.429.429", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.419.419", "start_pos": 419, "end_pos": 419, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HGALSARNSSQPSTANNGSN", "down_seq": "FKSSAVPQTSPGQPRKGQNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser419" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00684-1.429.429", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.422.422", "start_pos": 422, "end_pos": 422, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSARNSSQPSTANNGSNSFK", "down_seq": "SAVPQTSPGQPRKGQNGSNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser422" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00684-1.429.429", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.423.423", "start_pos": 423, "end_pos": 423, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SARNSSQPSTANNGSNSFKS", "down_seq": "AVPQTSPGQPRKGQNGSNTI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser423" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00684-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00684-1.429.429", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.428.428", "start_pos": 428, "end_pos": 428, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SQPSTANNGSNSFKSSAVPQ", "down_seq": "SPGQPRKGQNGSNTIEDINN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr428" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00684-1.408.408", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00684-1.429.429", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.429.429", "start_pos": 429, "end_pos": 429, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Method for identifying phosphorylated substrates of specific cyclin/cyclin-dependent kinase complexes.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2014-08-05", "authors": "Li Yinyin, Cross Frederick R, Chait Brian T", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "25049391", "url": "https://glygen.org/publication/PubMed/25049391" } ] }, { "title": "Cdc14 and PP2A Phosphatases Cooperate to Shape Phosphoproteome Dynamics during Mitotic Exit.", "journal": "Cell reports", "date": "2019-11-12", "authors": "Touati Sandra A, Hofbauer Lorena, Jones Andrew W, Snijders Ambrosius P, Kelly Gavin, Uhlmann Frank", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "31722221", "url": "https://glygen.org/publication/PubMed/31722221" } ] }, { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "25049391", "url": "https://glygen.org/publication/PubMed/25049391", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31722221", "url": "https://glygen.org/publication/PubMed/31722221", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QPSTANNGSNSFKSSAVPQT", "down_seq": "PGQPRKGQNGSNTIEDINNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "25049391", "url": "https://glygen.org/publication/PubMed/25049391" }, { "database": "PubMed", "id": "31722221", "url": "https://glygen.org/publication/PubMed/31722221" }, { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser429" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00684-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00684-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00684-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00684-1.422.422", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00684-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00684-1.428.428", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.464.464", "start_pos": 464, "end_pos": 464, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EDINNNRNPTSHANRKVVIE", "down_seq": "NNSDDESMQDTNGTSNHYPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser464" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q00684-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00684-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.467.467", "start_pos": 467, "end_pos": 467, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNNRNPTSHANRKVVIESNN", "down_seq": "DDESMQDTNGTSNHYPKVSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser467" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00684-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00684-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NPTSHANRKVVIESNNSDDE", "down_seq": "MQDTNGTSNHYPKVSRKKND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser471" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q00684-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00684-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A large-scale method to measure absolute protein phosphorylation stoichiometries.", "journal": "Nature methods", "date": "2011-07-03", "authors": "Wu Ronghu, Haas Wilhelm, Dephoure Noah, Huttlin Edward L, Zhai Bo, Sowa Mathew E, Gygi Steven P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "21725298", "url": "https://glygen.org/publication/PubMed/21725298" } ] }, { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "21725298", "url": "https://glygen.org/publication/PubMed/21725298", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RKVVIESNNSDDESMQDTNG", "down_seq": "SNHYPKVSRKKNDISSASSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "PubMed", "id": "21725298", "url": "https://glygen.org/publication/PubMed/21725298" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr478" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00684-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00684-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00684-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00684-1.496.496", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.482.482", "start_pos": 482, "end_pos": 482, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IESNNSDDESMQDTNGTSNH", "down_seq": "PKVSRKKNDISSASSSRMED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Tyr482" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00684-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q00684-1.467.467", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00684-1.496.496", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QDTNGTSNHYPKVSRKKNDI", "down_seq": "SASSSRMEDNEPSATNINNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser493" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00684-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00684-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00684-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.508.508", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DTNGTSNHYPKVSRKKNDIS", "down_seq": "ASSSRMEDNEPSATNINNAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser494" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00684-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00684-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00684-1.508.508", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NGTSNHYPKVSRKKNDISSA", "down_seq": "SSRMEDNEPSATNINNAADD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Ser496" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00684-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00684-1.482.482", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00684-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00684-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00684-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00684-1.508.508", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MRR", "down_seq": "VYLDNTIEFLRGRVYLGAYD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser4" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.506.506", "start_pos": 506, "end_pos": 506, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRKKNDISSASSSRMEDNEP", "down_seq": "ATNINNAADDTILRQLLPKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser506" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00684-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00684-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00684-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00684-1.508.508", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.517.517", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.508.508", "start_pos": 508, "end_pos": 508, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KKNDISSASSSRMEDNEPSA", "down_seq": "NINNAADDTILRQLLPKNRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr508" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q00684-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00684-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00684-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00684-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00684-1.517.517", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSRMEDNEPSATNINNAADD", "down_seq": "ILRQLLPKNRRVTSGRRTTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr517" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00684-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00684-1.508.508", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00684-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00684-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00684-1.537.537", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.531.531", "start_pos": 531, "end_pos": 531, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dbf2-Mob1 drives relocalization of protein phosphatase Cdc14 to the cytoplasm during exit from mitosis.", "journal": "J. Cell Biol.", "date": "2009", "authors": "Mohl Dane A, Huddleston Michael J, Collingwood Therese S, Annan Roland S, Deshaies Raymond J", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNAADDTILRQLLPKNRRVT", "down_seq": "GRRTTSAAGGIRKISGSIKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P22204-1", "kinase_gene_name": "DBF2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ], "site_lbl": "Ser531" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00684-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00684-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00684-1.537.537", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00684-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00684-1.548.548", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.535.535", "start_pos": 535, "end_pos": 535, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DDTILRQLLPKNRRVTSGRR", "down_seq": "TSAAGGIRKISGSIKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" } ], "site_lbl": "Thr535" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00684-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00684-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00684-1.537.537", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00684-1.548.548", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.537.537", "start_pos": 537, "end_pos": 537, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dbf2-Mob1 drives relocalization of protein phosphatase Cdc14 to the cytoplasm during exit from mitosis.", "journal": "J. Cell Biol.", "date": "2009", "authors": "Mohl Dane A, Huddleston Michael J, Collingwood Therese S, Annan Roland S, Deshaies Raymond J", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ] }, { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TILRQLLPKNRRVTSGRRTT", "down_seq": "AAGGIRKISGSIKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P22204-1", "kinase_gene_name": "DBF2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ], "site_lbl": "Ser537" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser537" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00684-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00684-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00684-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00684-1.546.546", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00684-1.548.548", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.546.546", "start_pos": 546, "end_pos": 546, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dbf2-Mob1 drives relocalization of protein phosphatase Cdc14 to the cytoplasm during exit from mitosis.", "journal": "J. Cell Biol.", "date": "2009", "authors": "Mohl Dane A, Huddleston Michael J, Collingwood Therese S, Annan Roland S, Deshaies Raymond J", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ] }, { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NRRVTSGRRTTSAAGGIRKI", "down_seq": "GSIKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P22204-1", "kinase_gene_name": "DBF2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ], "site_lbl": "Ser546" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser546" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q00684-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00684-1.537.537", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00684-1.548.548", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00684-1.548.548", "start_pos": 548, "end_pos": 548, "uniprot_canonical_ac": "Q00684-1", "length": 551, "uniprot_id": "CDC14_YEAST", "protein_name": "Tyrosine-protein phosphatase CDC14", "refseq_ac": "NP_116684", "refseq_name": "phosphoprotein phosphatase CDC14", "gene_name": "CDC14", "gene_names_uniprotkb": "CDC14; OAF3", "gene_names_refseq": "CDC14; OAF3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dbf2-Mob1 drives relocalization of protein phosphatase Cdc14 to the cytoplasm during exit from mitosis.", "journal": "J. Cell Biol.", "date": "2009", "authors": "Mohl Dane A, Huddleston Michael J, Collingwood Therese S, Annan Roland S, Deshaies Raymond J", "evidence": [ { "database": "UniProtKB", "id": "Q00684", "url": "https://www.uniprot.org/uniprotkb/Q00684" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RVTSGRRTTSAAGGIRKISG", "down_seq": "IKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P22204-1", "kinase_gene_name": "DBF2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "19221193", "url": "https://glygen.org/publication/PubMed/19221193" } ], "site_lbl": "Ser548" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001924", "url": "https://www.yeastgenome.org/locus/S000001924" }, { "database": "iPTMnet", "id": "Q00684", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00684" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser548" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "253", "end_pos": "253" }, { "start_pos": "280", "end_pos": "280" }, { "start_pos": "283", "end_pos": "283" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "271", "end_pos": "271" }, { "start_pos": "391", "end_pos": "391" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "422", "end_pos": "422" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "535", "end_pos": "535" }, { "start_pos": "537", "end_pos": "537" }, { "start_pos": "546", "end_pos": "546" }, { "start_pos": "548", "end_pos": "548" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00684-1.531.531", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q00684-1.535.535", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00684-1.537.537", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00684-1.546.546", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.178.178", "start_pos": 178, "end_pos": 178, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "NLLVNADCQLKICDFGLARG", "down_seq": "SENPVENSQFLTEYVATRWY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Tyr178" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00772-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00772-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00772-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00772-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00772-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.179.179", "start_pos": 179, "end_pos": 179, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLVNADCQLKICDFGLARGY", "down_seq": "ENPVENSQFLTEYVATRWYR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" } ], "site_lbl": "Ser179" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00772-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00772-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00772-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00772-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00772-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.186.186", "start_pos": 186, "end_pos": 186, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLKICDFGLARGYSENPVEN", "down_seq": "QFLTEYVATRWYRAPEIMLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser186" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00772-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00772-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00772-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00772-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00772-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.190.190", "start_pos": 190, "end_pos": 190, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" }, { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Ptc1p regulates cortical ER inheritance via Slt2p.", "journal": "The EMBO journal", "date": "2006-10-04", "authors": "Du Yunrui, Walker Lee, Novick Peter, Ferro-Novick Susan", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "16977319", "url": "https://glygen.org/publication/PubMed/16977319" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "A yeast mitogen-activated protein kinase homolog (Mpk1p) mediates signalling by protein kinase C.", "journal": "Molecular and cellular biology", "date": "1993-05", "authors": "Lee K S, Irie K, Gotoh Y, Watanabe Y, Araki H, Nishida E, Matsumoto K, Levin D E", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "8386319", "url": "https://glygen.org/publication/PubMed/8386319" } ] }, { "title": "A MAP kinase dependent feedback mechanism controls Rho1 GTPase and actin distribution in yeast.", "journal": "PloS one", "date": "2009-06-30", "authors": "Guo Shuguang, Shen Xiaoyun, Yan Gonghong, Ma Dongzhu, Bai Xiaochun, Li Suoping, Jiang Yu", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "19564916", "url": "https://glygen.org/publication/PubMed/19564916" } ] }, { "title": "A yeast MAPK cascade regulates pexophagy but not other autophagy pathways.", "journal": "The Journal of cell biology", "date": "2010-04-19", "authors": "Manjithaya Ravi, Jain Shveta, Farr\u00e9 Jean-Claude, Subramani Suresh", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20385774", "url": "https://glygen.org/publication/PubMed/20385774" } ] }, { "title": "Cbk1 kinase and Bck2 control MAP kinase activation and inactivation during heat shock.", "journal": "Molecular biology of the cell", "date": "2011-12", "authors": "Kuravi Venkata K, Kurischko Cornelia, Puri Manasi, Luca Francis C", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "22031291", "url": "https://glygen.org/publication/PubMed/22031291" } ] }, { "title": "The interaction of Slt2 MAP kinase with Knr4 is necessary for signalling through the cell wall integrity pathway in Saccharomyces cerevisiae.", "journal": "Molecular microbiology", "date": "2003-07", "authors": "Martin-Yken Helene, Dagkessamanskaia Adilia, Basmaji Fadi, Lagorce Arnaud, Francois Jean", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "12823808", "url": "https://glygen.org/publication/PubMed/12823808" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Differential Role of Threonine and Tyrosine Phosphorylation in the Activation and Activity of the Yeast MAPK Slt2.", "journal": "International journal of molecular sciences", "date": "2021-01-23", "authors": "Gonz\u00e1lez-Rubio Gema, Sellers-Moya \u00c1ngela, Mart\u00edn Humberto, Molina Mar\u00eda", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33498635", "url": "https://glygen.org/publication/PubMed/33498635" } ] } ], "crossref": [ { "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16977319", "url": "https://glygen.org/publication/PubMed/16977319", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "8386319", "url": "https://glygen.org/publication/PubMed/8386319", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19564916", "url": "https://glygen.org/publication/PubMed/19564916", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20385774", "url": "https://glygen.org/publication/PubMed/20385774", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22031291", "url": "https://glygen.org/publication/PubMed/22031291", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "12823808", "url": "https://glygen.org/publication/PubMed/12823808", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33498635", "url": "https://glygen.org/publication/PubMed/33498635", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "CDFGLARGYSENPVENSQFL", "down_seq": "EYVATRWYRAPEIMLSYQGY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "16977319", "url": "https://glygen.org/publication/PubMed/16977319" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "8386319", "url": "https://glygen.org/publication/PubMed/8386319" }, { "database": "PubMed", "id": "19564916", "url": "https://glygen.org/publication/PubMed/19564916" }, { "database": "PubMed", "id": "20385774", "url": "https://glygen.org/publication/PubMed/20385774" }, { "database": "PubMed", "id": "22031291", "url": "https://glygen.org/publication/PubMed/22031291" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "12823808", "url": "https://glygen.org/publication/PubMed/12823808" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33498635", "url": "https://glygen.org/publication/PubMed/33498635" } ], "site_lbl": "Thr190" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00772-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00772-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00772-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00772-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00772-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" }, { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Ptc1p regulates cortical ER inheritance via Slt2p.", "journal": "The EMBO journal", "date": "2006-10-04", "authors": "Du Yunrui, Walker Lee, Novick Peter, Ferro-Novick Susan", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "16977319", "url": "https://glygen.org/publication/PubMed/16977319" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "A yeast mitogen-activated protein kinase homolog (Mpk1p) mediates signalling by protein kinase C.", "journal": "Molecular and cellular biology", "date": "1993-05", "authors": "Lee K S, Irie K, Gotoh Y, Watanabe Y, Araki H, Nishida E, Matsumoto K, Levin D E", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "8386319", "url": "https://glygen.org/publication/PubMed/8386319" } ] }, { "title": "A MAP kinase dependent feedback mechanism controls Rho1 GTPase and actin distribution in yeast.", "journal": "PloS one", "date": "2009-06-30", "authors": "Guo Shuguang, Shen Xiaoyun, Yan Gonghong, Ma Dongzhu, Bai Xiaochun, Li Suoping, Jiang Yu", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "19564916", "url": "https://glygen.org/publication/PubMed/19564916" } ] }, { "title": "A yeast MAPK cascade regulates pexophagy but not other autophagy pathways.", "journal": "The Journal of cell biology", "date": "2010-04-19", "authors": "Manjithaya Ravi, Jain Shveta, Farr\u00e9 Jean-Claude, Subramani Suresh", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20385774", "url": "https://glygen.org/publication/PubMed/20385774" } ] }, { "title": "Cbk1 kinase and Bck2 control MAP kinase activation and inactivation during heat shock.", "journal": "Molecular biology of the cell", "date": "2011-12", "authors": "Kuravi Venkata K, Kurischko Cornelia, Puri Manasi, Luca Francis C", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "22031291", "url": "https://glygen.org/publication/PubMed/22031291" } ] }, { "title": "Zds1/Zds2-PP2ACdc55 complex specifies signaling output from Rho1 GTPase.", "journal": "The Journal of cell biology", "date": "2016-01-04", "authors": "Jonasson Erin M, Rossio Valentina, Hatakeyama Riko, Abe Mitsuhiro, Ohya Yoshikazu, Yoshida Satoshi", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "26728856", "url": "https://glygen.org/publication/PubMed/26728856" } ] }, { "title": "The interaction of Slt2 MAP kinase with Knr4 is necessary for signalling through the cell wall integrity pathway in Saccharomyces cerevisiae.", "journal": "Molecular microbiology", "date": "2003-07", "authors": "Martin-Yken Helene, Dagkessamanskaia Adilia, Basmaji Fadi, Lagorce Arnaud, Francois Jean", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "12823808", "url": "https://glygen.org/publication/PubMed/12823808" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Differential Role of Threonine and Tyrosine Phosphorylation in the Activation and Activity of the Yeast MAPK Slt2.", "journal": "International journal of molecular sciences", "date": "2021-01-23", "authors": "Gonz\u00e1lez-Rubio Gema, Sellers-Moya \u00c1ngela, Mart\u00edn Humberto, Molina Mar\u00eda", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33498635", "url": "https://glygen.org/publication/PubMed/33498635" } ] } ], "crossref": [ { "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "16977319", "url": "https://glygen.org/publication/PubMed/16977319", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "8386319", "url": "https://glygen.org/publication/PubMed/8386319", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19564916", "url": "https://glygen.org/publication/PubMed/19564916", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20385774", "url": "https://glygen.org/publication/PubMed/20385774", "database": "PubMed", "categories": [ "Other" ] }, { "id": "22031291", "url": "https://glygen.org/publication/PubMed/22031291", "database": "PubMed", "categories": [ "Other" ] }, { "id": "26728856", "url": "https://glygen.org/publication/PubMed/26728856", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "12823808", "url": "https://glygen.org/publication/PubMed/12823808", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33498635", "url": "https://glygen.org/publication/PubMed/33498635", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "FGLARGYSENPVENSQFLTE", "down_seq": "VATRWYRAPEIMLSYQGYTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "Phosphotyrosine", "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "16977319", "url": "https://glygen.org/publication/PubMed/16977319" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "8386319", "url": "https://glygen.org/publication/PubMed/8386319" }, { "database": "PubMed", "id": "19564916", "url": "https://glygen.org/publication/PubMed/19564916" }, { "database": "PubMed", "id": "20385774", "url": "https://glygen.org/publication/PubMed/20385774" }, { "database": "PubMed", "id": "22031291", "url": "https://glygen.org/publication/PubMed/22031291" }, { "database": "PubMed", "id": "26728856", "url": "https://glygen.org/publication/PubMed/26728856" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "12823808", "url": "https://glygen.org/publication/PubMed/12823808" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33498635", "url": "https://glygen.org/publication/PubMed/33498635" } ], "site_lbl": "Tyr192" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00772-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q00772-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00772-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00772-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00772-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.195.195", "start_pos": 195, "end_pos": 195, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ARGYSENPVENSQFLTEYVA", "down_seq": "RWYRAPEIMLSYQGYTKAID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr195" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00772-1.178.178", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q00772-1.179.179", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00772-1.186.186", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00772-1.190.190", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00772-1.192.192", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PIFKGKDYVNQLNQILQVLG", "down_seq": "PPDETLRRIGSKNVQDYIHQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" } ], "site_lbl": "Thr251" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.340.340", "start_pos": 340, "end_pos": 340, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IWHDPADEPVCSEKFEFSFE", "down_seq": "VNDMEDLKQMVIQEVQDFRL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" } ], "site_lbl": "Ser340" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SDVDNGNAAASEENYPKQMA", "down_seq": "SNSVAPQQESFGIHSQNLPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr413" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00772-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00772-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00772-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00772-1.428.428", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.414.414", "start_pos": 414, "end_pos": 414, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DVDNGNAAASEENYPKQMAT", "down_seq": "NSVAPQQESFGIHSQNLPRH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser414" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00772-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00772-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00772-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00772-1.428.428", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DNGNAAASEENYPKQMATSN", "down_seq": "VAPQQESFGIHSQNLPRHDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser416" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00772-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00772-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00772-1.423.423", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00772-1.428.428", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.423.423", "start_pos": 423, "end_pos": 423, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Mechanism of Mpk1 mitogen-activated protein kinase binding to the Swi4 transcription factor and its regulation by a novel caffeine-induced phosphorylation.", "journal": "Molecular and cellular biology", "date": "2009-12", "authors": "Truman Andrew W, Kim Ki-Young, Levin David E", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEENYPKQMATSNSVAPQQE", "down_seq": "FGIHSQNLPRHDADFPPRPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser423" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00772-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00772-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00772-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00772-1.428.428", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.428.428", "start_pos": 428, "end_pos": 428, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Mechanism of Mpk1 mitogen-activated protein kinase binding to the Swi4 transcription factor and its regulation by a novel caffeine-induced phosphorylation.", "journal": "Molecular and cellular biology", "date": "2009-12", "authors": "Truman Andrew W, Kim Ki-Young, Levin David E", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PKQMATSNSVAPQQESFGIH", "down_seq": "QNLPRHDADFPPRPQESMME", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P38110-1", "kinase_gene_name": "TEL1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser428" }, { "kinase_uniprot_canonical_ac": "P38111-1", "kinase_gene_name": "MEC1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser428" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19805511", "url": "https://glygen.org/publication/PubMed/19805511" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser428" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q00772-1.413.413", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00772-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00772-1.416.416", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00772-1.423.423", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.453.453", "start_pos": 453, "end_pos": 453, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RHDADFPPRPQESMMEMRPA", "down_seq": "GNTADIPPQNDNGTLLDLEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr453" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q00772-1.456.456", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.456.456", "start_pos": 456, "end_pos": 456, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ADFPPRPQESMMEMRPATGN", "down_seq": "ADIPPQNDNGTLLDLEKELE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000001072", "url": "https://www.yeastgenome.org/locus/S000001072" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr456" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00772-1.453.453", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IGHGAYGIVCSARFAEAAED", "down_seq": "TVAIKKVTNVFSKTLLCKRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr49" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00772-1.50.50", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00772-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "Q00772-1", "length": 484, "uniprot_id": "SLT2_YEAST", "protein_name": "Mitogen-activated protein kinase SLT2/MPK1", "refseq_ac": "NP_011895", "refseq_name": "mitogen-activated serine/threonine-protein kinase SLT2", "gene_name": "SLT2", "gene_names_uniprotkb": "SLT2; MPK1", "gene_names_refseq": "BYC2; LYT2; MPK1; SLK2; SLT2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00772", "url": "https://www.uniprot.org/uniprotkb/Q00772" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GHGAYGIVCSARFAEAAEDT", "down_seq": "VAIKKVTNVFSKTLLCKRSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00772", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00772" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr50" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "178", "end_pos": "178" }, { "start_pos": "179", "end_pos": "179" }, { "start_pos": "186", "end_pos": "186" }, { "start_pos": "190", "end_pos": "190" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "340", "end_pos": "340" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "428", "end_pos": "428" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "456", "end_pos": "456" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "50", "end_pos": "50" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00772-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.1013.1013", "start_pos": 1013, "end_pos": 1013, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKYLHSWKKSDVKPQENGND", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1013" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00816-1.1014.1014", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.1014.1014", "start_pos": 1014, "end_pos": 1014, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KYLHSWKKSDVKPQENGNDS", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1014" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00816-1.1013.1013", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.171.171", "start_pos": 171, "end_pos": 171, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VVEPERHVDYLSHEWKESEI", "down_seq": "NSWKYIILKKKKRDVDLVNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser171" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00816-1.173.173", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.173.173", "start_pos": 173, "end_pos": 173, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EPERHVDYLSHEWKESEISN", "down_seq": "WKYIILKKKKRDVDLVNAAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser173" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00816-1.171.171", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.213.213", "start_pos": 213, "end_pos": 213, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RLENASWRTWAKARNNLKTV", "down_seq": "PEVVNWSKDSDVTWLYGPIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser213" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VVNWSKDSDVTWLYGPIVRD", "down_seq": "EGNAQSEEEHDLERGYGSDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser236" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q00816-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00816-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00816-1.254.254", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSDVTWLYGPIVRDSEGNAQ", "down_seq": "EEEHDLERGYGSDDENSKRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser242" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00816-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00816-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00816-1.259.259", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.252.252", "start_pos": 252, "end_pos": 252, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IVRDSEGNAQSEEEHDLERG", "down_seq": "GSDDENSKRISMPTKNSKSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr252" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00816-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00816-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.259.259", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RDSEGNAQSEEEHDLERGYG", "down_seq": "DDENSKRISMPTKNSKSIAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser254" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00816-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00816-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.259.259", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NAQSEEEHDLERGYGSDDEN", "down_seq": "KRISMPTKNSKSIAAAPKPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00816-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.254.254", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TKNSKSIAAAPKPILKKRTV", "down_seq": "EIIEDNALWKLNEARKHMTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr286" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "TNLANYFAGKKDIENEHVNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DNALWKLNEARKHMTEMKHA", "down_seq": "VIMDPNGNKNVHDDFDALAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser311" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKDIENEHVNRNASHESNSK", "down_seq": "DVKISGNDNDNDEDMGPSVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.344.344", "start_pos": 344, "end_pos": 344, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDFDALAAQVNAQYYHYPKE", "down_seq": "NSSVSLKSQHSDKKDNSTIP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser344" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00816-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.355.355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.346.346", "start_pos": 346, "end_pos": 346, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FDALAAQVNAQYYHYPKESN", "down_seq": "SVSLKSQHSDKKDNSTIPNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser346" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00816-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00816-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.355.355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.347.347", "start_pos": 347, "end_pos": 347, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DALAAQVNAQYYHYPKESNS", "down_seq": "VSLKSQHSDKKDNSTIPNPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser347" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00816-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00816-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.355.355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LAAQVNAQYYHYPKESNSSV", "down_seq": "LKSQHSDKKDNSTIPNPVGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00816-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.352.352", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.355.355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.352.352", "start_pos": 352, "end_pos": 352, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QVNAQYYHYPKESNSSVSLK", "down_seq": "QHSDKKDNSTIPNPVGENSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser352" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00816-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00816-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.355.355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.355.355", "start_pos": 355, "end_pos": 355, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AQYYHYPKESNSSVSLKSQH", "down_seq": "DKKDNSTIPNPVGENSNGGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser355" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00816-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00816-1.346.346", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00816-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00816-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.352.352", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.402.402", "start_pos": 402, "end_pos": 402, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LHLKSALHVQNNRSTAQSNK", "down_seq": "ILENSTNDRKANLDQNLNSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser402" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "Q00816-1.421.421", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KSILENSTNDRKANLDQNLN", "down_seq": "PDNNRFPSSTSSSNRDNENN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser421" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00816-1.402.402", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.442.442", "start_pos": 442, "end_pos": 442, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PDNNRFPSSTSSSNRDNENN", "down_seq": "MGLSSILTSNPSEKSNKPTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser442" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "Q00816-1.450.450", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.450.450", "start_pos": 450, "end_pos": 450, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "STSSSNRDNENNSMGLSSIL", "down_seq": "SNPSEKSNKPTKNRHIHFND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Thr450" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00816-1.442.442", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.480.480", "start_pos": 480, "end_pos": 480, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "PTKNRHIHFNDRVEQCMALR", "down_seq": "PASQSEDDESDDENKQYVDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "Phosphotyrosine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" } ], "site_lbl": "Tyr480" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q00816-1.483.483", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.490.490", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.483.483", "start_pos": 483, "end_pos": 483, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NRHIHFNDRVEQCMALRYPA", "down_seq": "QSEDDESDDENKQYVDVNNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" } ], "site_lbl": "Ser483" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00816-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.490.490", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.485.485", "start_pos": 485, "end_pos": 485, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HIHFNDRVEQCMALRYPASQ", "down_seq": "EDDESDDENKQYVDVNNNAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser485" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q00816-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.483.483", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.490.490", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.490.490", "start_pos": 490, "end_pos": 490, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DRVEQCMALRYPASQSEDDE", "down_seq": "DDENKQYVDVNNNANVTTIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser490" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00816-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.483.483", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.485.485", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.552.552", "start_pos": 552, "end_pos": 552, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HLNKNTSDDDTSSQSSSSSH", "down_seq": "DDEEHGGLYINARFSRRSDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser552" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.570.570", "start_pos": 570, "end_pos": 570, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SHSDDEEHGGLYINARFSRR", "down_seq": "DSGVHSPITDNSSVASSTTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser570" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00816-1.552.552", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDDEEHGGLYINARFSRRSD", "down_seq": "GVHSPITDNSSVASSTTSRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser572" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00816-1.552.552", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EHGGLYINARFSRRSDSGVH", "down_seq": "PITDNSSVASSTTSRAHVRP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser576" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 13 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.579.579", "start_pos": 579, "end_pos": 579, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GLYINARFSRRSDSGVHSPI", "down_seq": "DNSSVASSTTSRAHVRPIIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr579" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.582.582", "start_pos": 582, "end_pos": 582, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "INARFSRRSDSGVHSPITDN", "down_seq": "SVASSTTSRAHVRPIIKLLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser582" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.583.583", "start_pos": 583, "end_pos": 583, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NARFSRRSDSGVHSPITDNS", "down_seq": "VASSTTSRAHVRPIIKLLPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser583" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.586.586", "start_pos": 586, "end_pos": 586, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FSRRSDSGVHSPITDNSSVA", "down_seq": "STTSRAHVRPIIKLLPDTTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser586" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.587.587", "start_pos": 587, "end_pos": 587, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRRSDSGVHSPITDNSSVAS", "down_seq": "TTSRAHVRPIIKLLPDTTLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser587" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00816-1.570.570", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q00816-1.572.572", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00816-1.576.576", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00816-1.579.579", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.582.582", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.583.583", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.604.604", "start_pos": 604, "end_pos": 604, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VASSTTSRAHVRPIIKLLPD", "down_seq": "TLNYGSDEESDNGEFNGYGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr604" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00816-1.622.622", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ASSTTSRAHVRPIIKLLPDT", "down_seq": "LNYGSDEESDNGEFNGYGNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr605" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00816-1.586.586", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q00816-1.587.587", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00816-1.622.622", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.608.608", "start_pos": 608, "end_pos": 608, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "TTSRAHVRPIIKLLPDTTLN", "down_seq": "GSDEESDNGEFNGYGNAVSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr608" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00816-1.622.622", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.610.610", "start_pos": 610, "end_pos": 610, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRAHVRPIIKLLPDTTLNYG", "down_seq": "DEESDNGEFNGYGNAVSHNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser610" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00816-1.622.622", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.614.614", "start_pos": 614, "end_pos": 614, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VRPIIKLLPDTTLNYGSDEE", "down_seq": "DNGEFNGYGNAVSHNVNTSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser614" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00816-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.622.622", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.622.622", "start_pos": 622, "end_pos": 622, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "PDTTLNYGSDEESDNGEFNG", "down_seq": "GNAVSHNVNTSRGYDYIYDY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr622" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00816-1.604.604", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q00816-1.605.605", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00816-1.608.608", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00816-1.610.610", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00816-1.614.614", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.658.658", "start_pos": 658, "end_pos": 658, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YIYDYNSVYTGDTSSFLPVD", "down_seq": "CDIVDVPEGMDLQTAIADDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser658" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.680.680", "start_pos": 680, "end_pos": 680, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DIVDVPEGMDLQTAIADDNA", "down_seq": "NYEFNNAVESKEKHVPQLHK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser680" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MAVQAKNDDDFHKSTFNLKR", "down_seq": "RSMGLLDEYIDPTKKLLGRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00816-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00816-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-02-13", "authors": "Chi An, Huttenhower Curtis, Geer Lewis Y, Coon Joshua J, Syka John E P, Bai Dina L, Shabanowitz Jeffrey, Burke Daniel J, Troyanskaya Olga G, Hunt Donald F", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VQAKNDDDFHKSTFNLKRTR", "down_seq": "MGLLDEYIDPTKKLLGRSDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser75" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00816-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.82.82", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 18 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.767.767", "start_pos": 767, "end_pos": 767, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EDDDDQEVDDNHDEGLSLRR", "down_seq": "LSLGKSGSTNSLYDLAQPSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr767" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDDQEVDDNHDEGLSLRRTL", "down_seq": "LGKSGSTNSLYDLAQPSLSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser769" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00816-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00816-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.773.773", "start_pos": 773, "end_pos": 773, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EVDDNHDEGLSLRRTLSLGK", "down_seq": "GSTNSLYDLAQPSLSSATPQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser773" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00816-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q00816-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.775.775", "start_pos": 775, "end_pos": 775, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDNHDEGLSLRRTLSLGKSG", "down_seq": "TNSLYDLAQPSLSSATPQQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser775" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q00816-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00816-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.776.776", "start_pos": 776, "end_pos": 776, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DNHDEGLSLRRTLSLGKSGS", "down_seq": "NSLYDLAQPSLSSATPQQKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr776" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00816-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00816-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.778.778", "start_pos": 778, "end_pos": 778, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HDEGLSLRRTLSLGKSGSTN", "down_seq": "LYDLAQPSLSSATPQQKNPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser778" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00816-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.780.780", "start_pos": 780, "end_pos": 780, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "EGLSLRRTLSLGKSGSTNSL", "down_seq": "DLAQPSLSSATPQQKNPTNF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr780" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00816-1.767.767", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.788.788", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.788.788", "start_pos": 788, "end_pos": 788, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSLGKSGSTNSLYDLAQPSL", "down_seq": "SATPQQKNPTNFTGGKTDVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser788" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00816-1.769.769", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q00816-1.773.773", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q00816-1.775.775", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00816-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00816-1.778.778", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00816-1.780.780", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.82.82", "start_pos": 82, "end_pos": 82, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "DFHKSTFNLKRTRSMGLLDE", "down_seq": "IDPTKKLLGRSDDLYDNDNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr82" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00816-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.863.863", "start_pos": 863, "end_pos": 863, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEQRPLPANSQLVNRSVLKG", "down_seq": "VTPANISSQKKKALPKQPKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser863" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "STFNLKRTRSMGLLDEYIDP", "down_seq": "KKLLGRSDDLYDNDNEYYDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr86" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00816-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00816-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.82.82", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.884.884", "start_pos": 884, "end_pos": 884, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VTPANISSQKKKALPKQPKA", "down_seq": "DSSQSFRIVNNTPSPAEVGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser884" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00816-1.886.886", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00816-1.896.896", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00816-1.898.898", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.886.886", "start_pos": 886, "end_pos": 886, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PANISSQKKKALPKQPKASD", "down_seq": "SQSFRIVNNTPSPAEVGASD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser886" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00816-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.896.896", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q00816-1.898.898", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.896.896", "start_pos": 896, "end_pos": 896, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ALPKQPKASDSSQSFRIVNN", "down_seq": "PSPAEVGASDVAIEGYFSPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr896" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q00816-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00816-1.886.886", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.898.898", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00816-1.912.912", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q00816-1.914.914", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.898.898", "start_pos": 898, "end_pos": 898, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PKQPKASDSSQSFRIVNNTP", "down_seq": "PAEVGASDVAIEGYFSPRNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser898" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00816-1.884.884", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q00816-1.886.886", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.896.896", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00816-1.912.912", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q00816-1.914.914", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.905.905", "start_pos": 905, "end_pos": 905, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DSSQSFRIVNNTPSPAEVGA", "down_seq": "DVAIEGYFSPRNESIKSVVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser905" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q00816-1.886.886", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00816-1.896.896", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.898.898", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q00816-1.912.912", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q00816-1.914.914", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00816-1.922.922", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q00816-1.925.925", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.912.912", "start_pos": 912, "end_pos": 912, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IVNNTPSPAEVGASDVAIEG", "down_seq": "FSPRNESIKSVVSGGNMMDH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr912" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q00816-1.896.896", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q00816-1.898.898", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.914.914", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00816-1.922.922", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00816-1.925.925", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.914.914", "start_pos": 914, "end_pos": 914, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNTPSPAEVGASDVAIEGYF", "down_seq": "PRNESIKSVVSGGNMMDHQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser914" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q00816-1.896.896", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q00816-1.898.898", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.912.912", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.922.922", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.925.925", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.922.922", "start_pos": 922, "end_pos": 922, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VGASDVAIEGYFSPRNESIK", "down_seq": "VVSGGNMMDHQDHSEMDTLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser922" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q00816-1.912.912", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00816-1.914.914", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.925.925", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00816-1.936.936", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.925.925", "start_pos": 925, "end_pos": 925, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDVAIEGYFSPRNESIKSVV", "down_seq": "GGNMMDHQDHSEMDTLAKGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser925" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q00816-1.905.905", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q00816-1.912.912", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00816-1.914.914", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.922.922", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.936.936", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.936.936", "start_pos": 936, "end_pos": 936, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RNESIKSVVSGGNMMDHQDH", "down_seq": "EMDTLAKGFENCHINNASKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser936" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00816-1.922.922", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q00816-1.925.925", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.963.963", "start_pos": 963, "end_pos": 963, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGFENCHINNASKLKDKKVD", "down_seq": "VQTTRKEASLTDSSNESLHK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser963" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "Q00816-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q00816-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q00816-1.976.976", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q00816-1.977.977", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q00816-1.980.980", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.972.972", "start_pos": 972, "end_pos": 972, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NASKLKDKKVDSVQTTRKEA", "down_seq": "LTDSSNESLHKVVQNARGMA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser972" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q00816-1.963.963", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.976.976", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q00816-1.977.977", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q00816-1.980.980", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.974.974", "start_pos": 974, "end_pos": 974, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SKLKDKKVDSVQTTRKEASL", "down_seq": "DSSNESLHKVVQNARGMASK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr974" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q00816-1.963.963", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00816-1.976.976", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.977.977", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00816-1.980.980", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.976.976", "start_pos": 976, "end_pos": 976, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKDKKVDSVQTTRKEASLTD", "down_seq": "SNESLHKVVQNARGMASKYL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser976" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q00816-1.963.963", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00816-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q00816-1.977.977", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00816-1.980.980", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.977.977", "start_pos": 977, "end_pos": 977, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDKKVDSVQTTRKEASLTDS", "down_seq": "NESLHKVVQNARGMASKYLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser977" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q00816-1.963.963", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q00816-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q00816-1.976.976", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q00816-1.980.980", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00816-1.980.980", "start_pos": 980, "end_pos": 980, "uniprot_canonical_ac": "Q00816-1", "length": 1014, "uniprot_id": "REG1_YEAST", "protein_name": "Resistance to glucose repression protein 1", "refseq_ac": "NP_010311", "refseq_name": "protein phosphatase regulator REG1", "gene_name": "REG1", "gene_names_uniprotkb": "REG1; HEX2; PZF240; SPP43; SRN1; YD9813.06C", "gene_names_refseq": "HEX2; PZF240; REG1; SPP43; SRN1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KVDSVQTTRKEASLTDSSNE", "down_seq": "LHKVVQNARGMASKYLHSWK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q00816", "url": "https://www.uniprot.org/uniprotkb/Q00816" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q00816", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00816" }, { "database": "SGD", "id": "S000002435", "url": "https://www.yeastgenome.org/locus/S000002435" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser980" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1013", "end_pos": "1013" }, { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "171", "end_pos": "171" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "346", "end_pos": "346" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "450", "end_pos": "450" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "483", "end_pos": "483" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "490", "end_pos": "490" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "570", "end_pos": "570" }, { "start_pos": "572", "end_pos": "572" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "579", "end_pos": "579" }, { "start_pos": "582", "end_pos": "582" }, { "start_pos": "583", "end_pos": "583" }, { "start_pos": "586", "end_pos": "586" }, { "start_pos": "587", "end_pos": "587" }, { "start_pos": "604", "end_pos": "604" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "608", "end_pos": "608" }, { "start_pos": "610", "end_pos": "610" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "658", "end_pos": "658" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "767", "end_pos": "767" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "773", "end_pos": "773" }, { "start_pos": "775", "end_pos": "775" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "778", "end_pos": "778" }, { "start_pos": "780", "end_pos": "780" }, { "start_pos": "788", "end_pos": "788" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "863", "end_pos": "863" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" }, { "start_pos": "896", "end_pos": "896" }, { "start_pos": "898", "end_pos": "898" }, { "start_pos": "905", "end_pos": "905" }, { "start_pos": "912", "end_pos": "912" }, { "start_pos": "914", "end_pos": "914" }, { "start_pos": "922", "end_pos": "922" }, { "start_pos": "925", "end_pos": "925" }, { "start_pos": "936", "end_pos": "936" }, { "start_pos": "963", "end_pos": "963" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "974", "end_pos": "974" }, { "start_pos": "976", "end_pos": "976" }, { "start_pos": "977", "end_pos": "977" }, { "start_pos": "980", "end_pos": "980" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q00816-1.963.963", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q00816-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00816-1.974.974", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00816-1.976.976", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q00816-1.977.977", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.107.109", "start_pos": 107, "end_pos": 109, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "RFP", "start_aa": "R", "up_seq": "GEQGCFMIDRENNYYLVNGF", "down_seq": "RLPQKKKEELLETLQDGTLL", "mutagenesis": [ { "sequence_org": "RFP", "sequence_mut": "AAA", "comment": "Reduced growth at 25 degrees and lethal at 37 degrees.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01159-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01159-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "IDRENNYYLVNGFRFPRLPQ", "down_seq": "KKEELLETLQDGTLLDGELV", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01159-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01159-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "DRENNYYLVNGFRFPRLPQK", "down_seq": "KEELLETLQDGTLLDGELVI", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q01159-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "RENNYYLVNGFRFPRLPQKK", "down_seq": "EELLETLQDGTLLDGELVIQ", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "ENNYYLVNGFRFPRLPQKKK", "down_seq": "ELLETLQDGTLLDGELVIQT", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "NNYYLVNGFRFPRLPQKKKE", "down_seq": "LLETLQDGTLLDGELVIQTN", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "PRLPQKKKEELLETLQDGTL", "down_seq": "DGELVIQTNPMTKLQELRYL", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "RLPQKKKEELLETLQDGTLL", "down_seq": "GELVIQTNPMTKLQELRYLM", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "LPQKKKEELLETLQDGTLLD", "down_seq": "ELVIQTNPMTKLQELRYLMF", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "PQKKKEELLETLQDGTLLDG", "down_seq": "LVIQTNPMTKLQELRYLMFD", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.134.134", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.134.134", "start_pos": 134, "end_pos": 134, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "KKKEELLETLQDGTLLDGEL", "down_seq": "IQTNPMTKLQELRYLMFDCL", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01159-1.118.118", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01159-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01159-1.130.130", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.131.131", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.132.132", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.218.218", "start_pos": 218, "end_pos": 218, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "KISMKHMDFSYQLVKVAKSL", "down_seq": "KLPHLSDGLIFTPVKAPYTA", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01159-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01159-1.225.225", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01159-1.226.226", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.219.219", "start_pos": 219, "end_pos": 219, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "ISMKHMDFSYQLVKVAKSLD", "down_seq": "LPHLSDGLIFTPVKAPYTAG", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01159-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01159-1.225.225", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01159-1.226.226", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "DFSYQLVKVAKSLDKLPHLS", "down_seq": "GLIFTPVKAPYTAGGKDSLL", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01159-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01159-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.226.226", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "FSYQLVKVAKSLDKLPHLSD", "down_seq": "LIFTPVKAPYTAGGKDSLLL", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q01159-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01159-1.219.219", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.225.225", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "PHLSDGLIFTPVKAPYTAGG", "down_seq": "DSLLLKWKPEQENTVDFKLI", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q01159-1.225.225", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.226.226", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01159-1.249.249", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "HLSDGLIFTPVKAPYTAGGK", "down_seq": "SLLLKWKPEQENTVDFKLIL", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01159-1.225.225", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01159-1.226.226", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01159-1.249.249", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "FTPVKAPYTAGGKDSLLLKW", "down_seq": "PEQENTVDFKLILDIPMVED", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "KAPYTAGGKDSLLLKWKPEQ", "down_seq": "NTVDFKLILDIPMVEDPSLP", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01159-1.249.249", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "APYTAGGKDSLLLKWKPEQE", "down_seq": "TVDFKLILDIPMVEDPSLPK", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01159-1.249.249", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.274.274", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.255.255", "start_pos": 255, "end_pos": 255, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PYTAGGKDSLLLKWKPEQEN", "down_seq": "VDFKLILDIPMVEDPSLPKD", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01159-1.249.249", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01159-1.274.274", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.275.275", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "TAGGKDSLLLKWKPEQENTV", "down_seq": "FKLILDIPMVEDPSLPKDDR", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q01159-1.241.241", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01159-1.249.249", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.274.274", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01159-1.275.275", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01159-1.276.276", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.274.274", "start_pos": 274, "end_pos": 274, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "NTVDFKLILDIPMVEDPSLP", "down_seq": "DDRNRWYYNYDVKPVFSLYV", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.275.275", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.276.276", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.275.275", "start_pos": 275, "end_pos": 275, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "TVDFKLILDIPMVEDPSLPK", "down_seq": "DRNRWYYNYDVKPVFSLYVW", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.274.274", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.276.276", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.276.276", "start_pos": 276, "end_pos": 276, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "VDFKLILDIPMVEDPSLPKD", "down_seq": "RNRWYYNYDVKPVFSLYVWQ", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01159-1.271.271", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.274.274", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.275.275", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.395.395", "start_pos": 395, "end_pos": 395, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "GNHTSVVQKVLESINDSVSL", "down_seq": "DLEEIVGDIKRCWDERRANM", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01159-1.396.396", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "NHTSVVQKVLESINDSVSLE", "down_seq": "LEEIVGDIKRCWDERRANMA", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01159-1.395.395", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "PKPTKTFPGSQPVSFQHSDV", "down_seq": "EKLLAHDYYVCEKTDGLRVL", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "KPTKTFPGSQPVSFQHSDVE", "down_seq": "KLLAHDYYVCEKTDGLRVLM", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Active site of the mRNA-capping enzyme guanylyltransferase from Saccharomyces cerevisiae: similarity to the nucleotidyl attachment motif of DNA and RNA ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-07-05", "authors": "Fresco L D, Buratowski S", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "PTKTFPGSQPVSFQHSDVEE", "down_seq": "LLAHDYYVCEKTDGLRVLMF", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "S", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "T", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SQPVSFQHSDVEEKLLAHDY", "down_seq": "VCEKTDGLRVLMFIVINPVT", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "Temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Active site of the mRNA-capping enzyme guanylyltransferase from Saccharomyces cerevisiae: similarity to the nucleotidyl attachment motif of DNA and RNA ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-07-05", "authors": "Fresco L D, Buratowski S", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "SFQHSDVEEKLLAHDYYVCE", "down_seq": "TDGLRVLMFIVINPVTGEQG", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "I", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "M", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "R", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] }, { "sequence_org": "K", "sequence_mut": "T", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "8022828", "url": "https://glygen.org/publication/PubMed/8022828" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FQHSDVEEKLLAHDYYVCEK", "down_seq": "DGLRVLMFIVINPVTGEQGC", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "QHSDVEEKLLAHDYYVCEKT", "down_seq": "GLRVLMFIVINPVTGEQGCF", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.73.73", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "HSDVEEKLLAHDYYVCEKTD", "down_seq": "LRVLMFIVINPVTGEQGCFM", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "Lethal.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q01159-1.57.57", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01159-1.58.58", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.59.59", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01159-1.66.66", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01159-1.70.70", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01159-1.71.71", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.72.72", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "RVLMFIVINPVTGEQGCFMI", "down_seq": "RENNYYLVNGFRFPRLPQKK", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01159-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "VLMFIVINPVTGEQGCFMID", "down_seq": "ENNYYLVNGFRFPRLPQKKK", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01159-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01159-1.97.97", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.97.97", "start_pos": 97, "end_pos": 97, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Covalent catalysis in nucleotidyl transfer reactions: essential motifs in Saccharomyces cerevisiae RNA capping enzyme are conserved in Schizosaccharomyces pombe and viral capping enzymes and among polynucleotide ligases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "1994-12-06", "authors": "Shuman S, Liu Y, Schwer B", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "reference": [ { "type": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "crossref": [ { "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "LMFIVINPVTGEQGCFMIDR", "down_seq": "NNYYLVNGFRFPRLPQKKKE", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Temperature-sensitive.", "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" }, { "database": "PubMed", "id": "7991582", "url": "https://glygen.org/publication/PubMed/7991582" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01159-1.95.95", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01159-1.96.96", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01159-1.107.109", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01159-1.114.114", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01159-1.115.115", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01159-1.116.116", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01159-1.117.117", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.164.164", "start_pos": 164, "end_pos": 164, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QELRYLMFDCLAINGRCLTQ", "down_seq": "PTSSRLAHLGKEFFKPYFDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098" }, { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser164" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQENTVDFKLILDIPMVEDP", "down_seq": "LPKDDRNRWYYNYDVKPVFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098" }, { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser271" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01159-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01159-1.254.254", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01159-1.255.255", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01159-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01159-1.274.274", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01159-1.275.275", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01159-1.276.276", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.36.36", "start_pos": 36, "end_pos": 36, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LIQPGNVTQDLKMMVCKLLN", "down_seq": "PKPTKTFPGSQPVSFQHSDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098" }, { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser36" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01159-1.458.458", "start_pos": 458, "end_pos": 458, "uniprot_canonical_ac": "Q01159-1", "length": 459, "uniprot_id": "MCE1_YEAST", "protein_name": "mRNA-capping enzyme subunit alpha", "refseq_ac": "NP_011385", "refseq_name": "mRNA guanylyltransferase", "gene_name": "CEG1", "gene_names_uniprotkb": "CEG1; G2853", "gene_names_refseq": "CEG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01159", "url": "https://www.uniprot.org/uniprotkb/Q01159" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VHSQPPSNDKEPKYVDEDDW", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01159", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01159" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003098", "url": "https://www.yeastgenome.org/locus/S000003098" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser458" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "107", "end_pos": "109" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "219", "end_pos": "219" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "274", "end_pos": "274" }, { "start_pos": "275", "end_pos": "275" }, { "start_pos": "276", "end_pos": "276" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "96", "end_pos": "96" }, { "start_pos": "97", "end_pos": "97" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "164", "end_pos": "164" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "36", "end_pos": "36" }, { "start_pos": "458", "end_pos": "458" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Yeast shuttling SR proteins Npl3p, Gbp2p, and Hrb1p are part of the translating mRNPs, and Npl3p can function as a translational repressor.", "journal": "Molecular and cellular biology", "date": "2004-12", "authors": "Windgassen Merle, Sturm Doroth\u00e9e, Cajigas Iv\u00e1n J, Gonz\u00e1lez Carlos I, Seedorf Matthias, Bastians Holger, Krebber Heike", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "reference": [ { "type": "PubMed", "id": "15542855", "url": "https://glygen.org/publication/PubMed/15542855" } ] }, { "title": "Conserved SR protein kinase functions in nuclear import and its action is counteracted by arginine methylation in Saccharomyces cerevisiae.", "journal": "The Journal of cell biology", "date": "2000-08-21", "authors": "Yun C Y, Fu X D", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "10952997", "url": "https://glygen.org/publication/PubMed/10952997" } ] }, { "title": "Phosphorylation by Sky1p promotes Npl3p shuttling and mRNA dissociation.", "journal": "RNA (New York, N.Y.)", "date": "2001-02", "authors": "Gilbert W, Siebel C W, Guthrie C", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "11233987", "url": "https://glygen.org/publication/PubMed/11233987" } ] }, { "title": "The Glc7p nuclear phosphatase promotes mRNA export by facilitating association of Mex67p with mRNA.", "journal": "Molecular cell", "date": "2004-01-30", "authors": "Gilbert Wendy, Guthrie Christine", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "14759366", "url": "https://glygen.org/publication/PubMed/14759366" } ] }, { "title": "Chemical clamping allows for efficient phosphorylation of the RNA carrier protein Npl3.", "journal": "The Journal of biological chemistry", "date": "2004-07-16", "authors": "Aubol Brandon E, Ungs Leslie, Lukasiewicz Randy, Ghosh Gourisankar, Adams Joseph A", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "15145958", "url": "https://glygen.org/publication/PubMed/15145958" } ] }, { "title": "The RGG domain of Npl3p recruits Sky1p through docking interactions.", "journal": "J. Mol. Biol.", "date": "2007", "authors": "Lukasiewicz Randall, Nolen Bradley, Adams Joseph A, Ghosh Gourisankar", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "17239901", "url": "https://glygen.org/publication/PubMed/17239901" } ] }, { "title": "Autoregulation of Npl3, a yeast SR protein, requires a novel downstream region and serine phosphorylation.", "journal": "Molecular and cellular biology", "date": "2008-06", "authors": "Lund Mette K, Kress Tracy L, Guthrie Christine", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18391019", "url": "https://glygen.org/publication/PubMed/18391019" } ] }, { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "The prion-like protein kinase Sky1 is required for efficient stress granule disassembly.", "journal": "Nature communications", "date": "2019-08-09", "authors": "Shattuck Jenifer E, Paul Kacy R, Cascarina Sean M, Ross Eric D", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "31399582", "url": "https://glygen.org/publication/PubMed/31399582" } ] }, { "title": "The SR-protein Npl3 is an essential component of the meiotic splicing regulatory network in Saccharomyces cerevisiae.", "journal": "Nucleic acids research", "date": "2021-03-18", "authors": "Sandhu Rima, Sinha Aniketa, Montpetit Ben", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33577675", "url": "https://glygen.org/publication/PubMed/33577675" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15542855", "url": "https://glygen.org/publication/PubMed/15542855", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "10952997", "url": "https://glygen.org/publication/PubMed/10952997", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11233987", "url": "https://glygen.org/publication/PubMed/11233987", "database": "PubMed", "categories": [ "Other" ] }, { "id": "14759366", "url": "https://glygen.org/publication/PubMed/14759366", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15145958", "url": "https://glygen.org/publication/PubMed/15145958", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17239901", "url": "https://glygen.org/publication/PubMed/17239901", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18391019", "url": "https://glygen.org/publication/PubMed/18391019", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31399582", "url": "https://glygen.org/publication/PubMed/31399582", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33577675", "url": "https://glygen.org/publication/PubMed/33577675", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RGDYGPPRDAYRTRDAPRER", "down_seq": "PTR", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Shifts localization of the protein to the cytoplasm at steady state.", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "15542855", "url": "https://glygen.org/publication/PubMed/15542855" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "10952997", "url": "https://glygen.org/publication/PubMed/10952997" }, { "database": "PubMed", "id": "11233987", "url": "https://glygen.org/publication/PubMed/11233987" }, { "database": "PubMed", "id": "14759366", "url": "https://glygen.org/publication/PubMed/14759366" }, { "database": "PubMed", "id": "15145958", "url": "https://glygen.org/publication/PubMed/15145958" }, { "database": "PubMed", "id": "17239901", "url": "https://glygen.org/publication/PubMed/17239901" }, { "database": "PubMed", "id": "18391019", "url": "https://glygen.org/publication/PubMed/18391019" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "PubMed", "id": "31399582", "url": "https://glygen.org/publication/PubMed/31399582" }, { "database": "PubMed", "id": "33577675", "url": "https://glygen.org/publication/PubMed/33577675" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser411" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.123.123", "start_pos": 123, "end_pos": 123, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PPGEHMHGRPPMHHRQEGEL", "down_seq": "NTRLFVRPFPLDVQESELNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser123" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSEAQETHVEQLPE", "down_seq": "VVDAPVEEQHQEPPQAPDAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "site_lbl": "Ser15" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01560-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.182.182", "start_pos": 182, "end_pos": 182, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FVEFEEAESAAKAIEEVHGK", "down_seq": "FANQPLEVVYSKLPAKRYRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser182" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "Q01560-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01560-1.193.193", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.192.192", "start_pos": 192, "end_pos": 192, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "AKAIEEVHGKSFANQPLEVV", "down_seq": "SKLPAKRYRITMKNLPEGCS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr192" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q01560-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01560-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01560-1.212.212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.193.193", "start_pos": 193, "end_pos": 193, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KAIEEVHGKSFANQPLEVVY", "down_seq": "KLPAKRYRITMKNLPEGCSW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser193" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01560-1.182.182", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01560-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01560-1.212.212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] }, { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YSKLPAKRYRITMKNLPEGC", "down_seq": "WQDLKDLARENSLETTFSSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser212" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01560-1.192.192", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q01560-1.193.193", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01560-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01560-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01560-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01560-1.230.230", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A proteome-wide analysis of kinase-substrate network in the DNA damage response.", "journal": "The Journal of biological chemistry", "date": "2010-04-23", "authors": "Chen Sheng-hong, Albuquerque Claudio P, Liang Jason, Suhandynata Raymond T, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKNLPEGCSWQDLKDLAREN", "down_seq": "LETTFSSVNTRDFDGTGALE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser224" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01560-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01560-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01560-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01560-1.230.230", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 16 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LPEGCSWQDLKDLARENSLE", "down_seq": "TFSSVNTRDFDGTGALEFPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr227" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01560-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01560-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01560-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01560-1.230.230", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PEGCSWQDLKDLARENSLET", "down_seq": "FSSVNTRDFDGTGALEFPSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" } ], "site_lbl": "Thr228" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q01560-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01560-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01560-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01560-1.230.230", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GCSWQDLKDLARENSLETTF", "down_seq": "SVNTRDFDGTGALEFPSEEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01560-1.212.212", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01560-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01560-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01560-1.228.228", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSEEILVEALERLNNIEFRG", "down_seq": "VITVERDDNPPPIRRSNRGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] } ], "crossref": [ { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "EAQETHVEQLPESVVDAPVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "Q01560-1.15.15", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Crosstalk of Phosphorylation and Arginine Methylation in Disordered SRGG Repeats of Saccharomycescerevisiae Fibrillarin and Its Association with Nucleolar Localization.", "journal": "Journal of molecular biology", "date": "2020-01-17", "authors": "Smith Daniela-Lee, Erce Melissa A, Lai Yu-Wen, Tomasetig Florence, Hart-Smith Gene, Hamey Joshua J, Wilkins Marc R", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GFRGRGGFRGGFRGGFRGGF", "down_seq": "RGGFGGPRGGFGGPRGGYGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.328.328", "start_pos": 328, "end_pos": 328, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GGFGGPRGGFGGPRGGYGGY", "down_seq": "RGGYGGYSRGGYGGSRGGYD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ], "site_lbl": "Ser328" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "Q01560-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01560-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01560-1.347.347", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "Crosstalk of Phosphorylation and Arginine Methylation in Disordered SRGG Repeats of Saccharomycescerevisiae Fibrillarin and Its Association with Nucleolar Localization.", "journal": "Journal of molecular biology", "date": "2020-01-17", "authors": "Smith Daniela-Lee, Erce Melissa A, Lai Yu-Wen, Tomasetig Florence, Hart-Smith Gene, Hamey Joshua J, Wilkins Marc R", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GFGGPRGGYGGYSRGGYGGY", "down_seq": "RGGYGGSRGGYDSPRGGYDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ], "site_lbl": "Ser336" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q01560-1.328.328", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01560-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01560-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01560-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01560-1.356.356", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Crosstalk of Phosphorylation and Arginine Methylation in Disordered SRGG Repeats of Saccharomycescerevisiae Fibrillarin and Its Association with Nucleolar Localization.", "journal": "Journal of molecular biology", "date": "2020-01-17", "authors": "Smith Daniela-Lee, Erce Melissa A, Lai Yu-Wen, Tomasetig Florence, Hart-Smith Gene, Hamey Joshua J, Wilkins Marc R", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GYGGYSRGGYGGYSRGGYGG", "down_seq": "RGGYDSPRGGYDSPRGGYSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ], "site_lbl": "Ser343" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01560-1.328.328", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01560-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01560-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01560-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01560-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01560-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.347.347", "start_pos": 347, "end_pos": 347, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "YSRGGYGGYSRGGYGGSRGG", "down_seq": "DSPRGGYDSPRGGYSRGGYG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Tyr347" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01560-1.328.328", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01560-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01560-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01560-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01560-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01560-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae.", "journal": "Nature biotechnology", "date": "2002-03", "authors": "Ficarro Scott B, McCleland Mark L, Stukenberg P Todd, Burke Daniel J, Ross Mark M, Shabanowitz Jeffrey, Hunt Donald F, White Forest M", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae.", "journal": "Molecular bioSystems", "date": "2012-03", "authors": "Pultz Dennis, Bennetzen Martin V, R\u00f8dk\u00e6r Steven Vestergaard, Zimmermann Christine, Enserink Jorrit M, Andersen Jens S, F\u00e6rgeman Nils J", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RGGYGGYSRGGYGGSRGGYD", "down_seq": "PRGGYDSPRGGYSRGGYGGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "11875433", "url": "https://glygen.org/publication/PubMed/11875433" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01560-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01560-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01560-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01560-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01560-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.356.356", "start_pos": 356, "end_pos": 356, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRGGYGGSRGGYDSPRGGYD", "down_seq": "PRGGYSRGGYGGPRNDYGPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser356" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01560-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01560-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01560-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01560-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01560-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.362.362", "start_pos": 362, "end_pos": 362, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Crosstalk of Phosphorylation and Arginine Methylation in Disordered SRGG Repeats of Saccharomycescerevisiae Fibrillarin and Its Association with Nucleolar Localization.", "journal": "Journal of molecular biology", "date": "2020-01-17", "authors": "Smith Daniela-Lee, Erce Melissa A, Lai Yu-Wen, Tomasetig Florence, Hart-Smith Gene, Hamey Joshua J, Wilkins Marc R", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSRGGYDSPRGGYDSPRGGY", "down_seq": "RGGYGGPRNDYGPPRGSYGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "31756331", "url": "https://glygen.org/publication/PubMed/31756331" } ], "site_lbl": "Ser362" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01560-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01560-1.347.347", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01560-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01560-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01560-1.379.379", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.379.379", "start_pos": 379, "end_pos": 379, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GGYSRGGYGGPRNDYGPPRG", "down_seq": "YGGSRGGYDGPRGDYGPPRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser379" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01560-1.362.362", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQEQNDVPPPSNAPIYEGEE", "down_seq": "HSVQDYQEAHQHHQPPEPQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q01560-1.79.79", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01560-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "Q01560-1", "length": 414, "uniprot_id": "NOP3_YEAST", "protein_name": "Serine/arginine (SR)-type shuttling mRNA binding protein NPL3", "refseq_ac": "NP_010720", "refseq_name": "mRNA-binding protein NPL3", "gene_name": "NPL3", "gene_names_uniprotkb": "NPL3; D9461.19; MTR13; MTS1; NAB1; NOP3", "gene_names_refseq": "MTR13; MTS1; NAB1; NOP3; NPL3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Discovery of Arginine Methylation, Phosphorylation, and Their Co-occurrence in Condensate-Associated Proteins in Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2021-05-07", "authors": "Hamey Joshua J, Nguyen Amy, Wilkins Marc R", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" } ] }, { "title": "Unphosphorylated SR-like protein Npl3 stimulates RNA polymerase II elongation.", "journal": "PloS one", "date": "2008-09-26", "authors": "Dermody Jessica L, Dreyfuss Jonathan M, Vill\u00e9n Judit, Ogundipe Babatunde, Gygi Steven P, Park Peter J, Ponticelli Alfred S, Moore Claire L, Buratowski Stephen, Bucheli Miriam E", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EQNDVPPPSNAPIYEGEESH", "down_seq": "VQDYQEAHQHHQPPEPQPYY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01560", "url": "https://www.uniprot.org/uniprotkb/Q01560" }, { "database": "PubMed", "id": "33856219", "url": "https://glygen.org/publication/PubMed/33856219" }, { "database": "SGD", "id": "S000002840", "url": "https://www.yeastgenome.org/locus/S000002840" }, { "database": "iPTMnet", "id": "Q01560", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01560" }, { "database": "PubMed", "id": "18818768", "url": "https://glygen.org/publication/PubMed/18818768" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "411", "end_pos": "411" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "182", "end_pos": "182" }, { "start_pos": "192", "end_pos": "192" }, { "start_pos": "193", "end_pos": "193" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "328", "end_pos": "328" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "79", "end_pos": "79" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01560-1.77.77", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01590-1.206.206", "start_pos": 206, "end_pos": 206, "uniprot_canonical_ac": "Q01590-1", "length": 340, "uniprot_id": "SED5_YEAST", "protein_name": "Integral membrane protein SED5", "refseq_ac": "NP_013126", "refseq_name": "t-SNARE syntaxin", "gene_name": "SED5", "gene_names_uniprotkb": "SED5", "gene_names_refseq": "SED5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01590", "url": "https://www.uniprot.org/uniprotkb/Q01590" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "SNARE selectivity of the COPII coat.", "journal": "Cell", "date": "2003", "authors": "Mossessova E, Bickford LC, Goldberg J", "evidence": [ { "database": "UniProtKB", "id": "Q01590", "url": "https://www.uniprot.org/uniprotkb/Q01590" } ], "reference": [ { "type": "PubMed", "id": "12941276", "url": "https://glygen.org/publication/PubMed/12941276" } ] } ], "crossref": [ { "id": "Q01590", "url": "https://www.uniprot.org/uniprotkb/Q01590", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12941276", "url": "https://glygen.org/publication/PubMed/12941276", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "PADDQTQSNHAADLTTYNNS", "down_seq": "PFMTSLLDESSEKNNNSSNQ", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "A", "comment": "Loss of interaction with SEC23/SEC24 complex.", "evidence": [ { "database": "UniProtKB", "id": "Q01590", "url": "https://www.uniprot.org/uniprotkb/Q01590" }, { "database": "PubMed", "id": "12941276", "url": "https://glygen.org/publication/PubMed/12941276" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "206", "end_pos": "206" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "317", "end_pos": "317" }, { "start_pos": "37", "end_pos": "37" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01590-1.317.317", "start_pos": 317, "end_pos": 317, "uniprot_canonical_ac": "Q01590-1", "length": 340, "uniprot_id": "SED5_YEAST", "protein_name": "Integral membrane protein SED5", "refseq_ac": "NP_013126", "refseq_name": "t-SNARE syntaxin", "gene_name": "SED5", "gene_names_uniprotkb": "SED5", "gene_names_refseq": "SED5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01590", "url": "https://www.uniprot.org/uniprotkb/Q01590" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Control of Golgi morphology and function by Sed5 t-SNARE phosphorylation.", "journal": "Molecular biology of the cell", "date": "2005-10", "authors": "Weinberger Adina, Kamena Faustin, Kama Rachel, Spang Anne, Gerst Jeffrey E", "evidence": [ { "database": "iPTMnet", "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590" } ], "reference": [ { "type": "PubMed", "id": "16093353", "url": "https://glygen.org/publication/PubMed/16093353" } ] }, { "title": "The yeast Batten disease orthologue Btn1 controls endosome-Golgi retrograde transport via SNARE assembly.", "journal": "The Journal of cell biology", "date": "2011-10-17", "authors": "Kama Rachel, Kanneganti Vydehi, Ungermann Christian, Gerst Jeffrey E", "evidence": [ { "database": "iPTMnet", "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590" } ], "reference": [ { "type": "PubMed", "id": "21987636", "url": "https://glygen.org/publication/PubMed/21987636" } ] } ], "crossref": [ { "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16093353", "url": "https://glygen.org/publication/PubMed/16093353", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21987636", "url": "https://glygen.org/publication/PubMed/21987636", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004016", "url": "https://www.yeastgenome.org/locus/S000004016", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IDLNISGAQRELLKYFDRIK", "down_seq": "NRWLAAKVFFIIFVFFVIWV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590" }, { "database": "PubMed", "id": "16093353", "url": "https://glygen.org/publication/PubMed/16093353" }, { "database": "PubMed", "id": "21987636", "url": "https://glygen.org/publication/PubMed/21987636" }, { "database": "SGD", "id": "S000004016", "url": "https://www.yeastgenome.org/locus/S000004016" } ], "site_lbl": "Ser317" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "206", "end_pos": "206" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "317", "end_pos": "317" }, { "start_pos": "37", "end_pos": "37" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01590-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "Q01590-1", "length": 340, "uniprot_id": "SED5_YEAST", "protein_name": "Integral membrane protein SED5", "refseq_ac": "NP_013126", "refseq_name": "t-SNARE syntaxin", "gene_name": "SED5", "gene_names_uniprotkb": "SED5", "gene_names_refseq": "SED5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01590", "url": "https://www.uniprot.org/uniprotkb/Q01590" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YKKRNKNFREQQRERLQEKE", "down_seq": "ENFANNTTGNGKSVSEFQKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01590", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01590" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "206", "end_pos": "206" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "317", "end_pos": "317" }, { "start_pos": "37", "end_pos": "37" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01852-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "Q01852-1", "length": 431, "uniprot_id": "TIM44_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM44", "refseq_ac": "NP_012242", "refseq_name": "protein translocase subunit TIM44", "gene_name": "TIM44", "gene_names_uniprotkb": "TIM44; ISP45; MIM44; MPI1", "gene_names_refseq": "ISP45; MIM44; MPI1; TIM44", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Residues of Tim44 involved in both association with the translocon of the inner mitochondrial membrane and regulation of mitochondrial Hsp70 tethering.", "journal": "Molecular and cellular biology", "date": "2008", "authors": "Schiller D, Cheng YC, Liu Q, Walter W, Craig EA", "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" } ], "reference": [ { "type": "PubMed", "id": "18426906", "url": "https://glygen.org/publication/PubMed/18426906" } ] } ], "crossref": [ { "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18426906", "url": "https://glygen.org/publication/PubMed/18426906", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "SEVIDDGESSRYGGFITKEQ", "down_seq": "RLKRERDLASGKRHRAVKSN", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Disrupts association with the translocase complex.", "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" }, { "database": "PubMed", "id": "18426906", "url": "https://glygen.org/publication/PubMed/18426906" } ] }, { "sequence_org": "R", "sequence_mut": "K", "comment": "Disrupts association with the translocase complex.", "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" }, { "database": "PubMed", "id": "18426906", "url": "https://glygen.org/publication/PubMed/18426906" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "180", "end_pos": "180" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01852-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01852-1.169.169", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01852-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "Q01852-1", "length": 431, "uniprot_id": "TIM44_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM44", "refseq_ac": "NP_012242", "refseq_name": "protein translocase subunit TIM44", "gene_name": "TIM44", "gene_names_uniprotkb": "TIM44; ISP45; MIM44; MPI1", "gene_names_refseq": "ISP45; MIM44; MPI1; TIM44", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EPVRQTKIYKEVSEVIDDGE", "down_seq": "SRYGGFITKEQRRLKRERDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284" }, { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "180", "end_pos": "180" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01852-1.169.169", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01852-1.180.180", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01852-1.169.169", "start_pos": 169, "end_pos": 169, "uniprot_canonical_ac": "Q01852-1", "length": 431, "uniprot_id": "TIM44_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM44", "refseq_ac": "NP_012242", "refseq_name": "protein translocase subunit TIM44", "gene_name": "TIM44", "gene_names_uniprotkb": "TIM44; ISP45; MIM44; MPI1", "gene_names_refseq": "ISP45; MIM44; MPI1; TIM44", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PVRQTKIYKEVSEVIDDGES", "down_seq": "RYGGFITKEQRRLKRERDLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284" }, { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser169" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "180", "end_pos": "180" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01852-1.168.168", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01852-1.180.180", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01852-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "Q01852-1", "length": 431, "uniprot_id": "TIM44_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM44", "refseq_ac": "NP_012242", "refseq_name": "protein translocase subunit TIM44", "gene_name": "TIM44", "gene_names_uniprotkb": "TIM44; ISP45; MIM44; MPI1", "gene_names_refseq": "ISP45; MIM44; MPI1; TIM44", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKESFGKKVEDFKEKTVVGR", "down_seq": "IQSLKNKLWDESENPLIVVM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284" }, { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser234" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "180", "end_pos": "180" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q01852-1.237.237", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01852-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "Q01852-1", "length": 431, "uniprot_id": "TIM44_YEAST", "protein_name": "Mitochondrial import inner membrane translocase subunit TIM44", "refseq_ac": "NP_012242", "refseq_name": "protein translocase subunit TIM44", "gene_name": "TIM44", "gene_names_uniprotkb": "TIM44; ISP45; MIM44; MPI1", "gene_names_refseq": "ISP45; MIM44; MPI1; TIM44", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01852", "url": "https://www.uniprot.org/uniprotkb/Q01852" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SFGKKVEDFKEKTVVGRSIQ", "down_seq": "LKNKLWDESENPLIVVMRKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001284", "url": "https://www.yeastgenome.org/locus/S000001284" }, { "database": "iPTMnet", "id": "Q01852", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01852" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser237" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "180", "end_pos": "180" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "168", "end_pos": "168" }, { "start_pos": "169", "end_pos": "169" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "237", "end_pos": "237" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01852-1.234.234", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphorylation of the 19S regulatory particle ATPase subunit, Rpt6, modifies susceptibility to proteotoxic stress and protein aggregation.", "journal": "PloS one", "date": "2017", "authors": "Marquez-Lona Esther Magdalena, Torres-Machorro Ana Lilia, Gonzales Frankie R, Pillus Lorraine, Patrick Gentry N", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "28662109", "url": "https://glygen.org/publication/PubMed/28662109" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "28662109", "url": "https://glygen.org/publication/PubMed/28662109", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKDINVKDLKASQRVCLRSD", "down_seq": "YMLHKVLENKADPLVSLMMV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "28662109", "url": "https://glygen.org/publication/PubMed/28662109" }, { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser119" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DCKFIRVSGAELVQKYIGEG", "down_seq": "RMVRELFVMAREHAPSIIFM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser227" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APSIIFMDEIDSIGSTRVEG", "down_seq": "GGGDSEVQRTMLELLNQLDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser261" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "Q01939-1.266.266", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FMDEIDSIGSTRVEGSGGGD", "down_seq": "EVQRTMLELLNQLDGFETSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser266" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01939-1.261.261", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.332.332", "start_pos": 332, "end_pos": 332, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Effects of Acetylation and Phosphorylation on Subunit Interactions in Three Large Eukaryotic Complexes.", "journal": "Molecular & cellular proteomics : MCP", "date": "2018-12", "authors": "\u0160o\u0161tari\u0107 Nikolina, O'Reilly Francis J, Giansanti Piero, Heck Albert J R, Gavin Anne-Claude, van Noort Vera", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "30181345", "url": "https://glygen.org/publication/PubMed/30181345" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30181345", "url": "https://glygen.org/publication/PubMed/30181345", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RKIEFPPPSVAARAEILRIH", "down_seq": "RKMNLTRGINLRKVAEKMNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "30181345", "url": "https://glygen.org/publication/PubMed/30181345" } ], "site_lbl": "Ser332" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.399.399", "start_pos": 399, "end_pos": 399, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QEDFELAVGKVMNKNQETAI", "down_seq": "VAKLFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser399" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ALNDKVRFIKDELRLLQEPG", "down_seq": "YVGEVIKIVSDKKVLVKVQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01939-1.71.71", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LNDKVRFIKDELRLLQEPGS", "down_seq": "VGEVIKIVSDKKVLVKVQPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr71" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01939-1.70.70", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01939-1.8.8", "start_pos": 8, "end_pos": 8, "uniprot_canonical_ac": "Q01939-1", "length": 405, "uniprot_id": "PRS8_YEAST", "protein_name": "26S proteasome regulatory subunit 8 homolog", "refseq_ac": "NP_011467", "refseq_name": "proteasome regulatory particle base subunit RPT6", "gene_name": "RPT6", "gene_names_uniprotkb": "RPT6; CIM3; CRL3; SUG1; TBPY; TBY1", "gene_names_refseq": "CIM3; CRL3; RPT6; SCB68; SUG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01939", "url": "https://www.uniprot.org/uniprotkb/Q01939" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTAAVTS", "down_seq": "NIVLETHESGIKPYFEQKIQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003016", "url": "https://www.yeastgenome.org/locus/S000003016" }, { "database": "iPTMnet", "id": "Q01939", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01939" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser8" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "399", "end_pos": "399" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "8", "end_pos": "8" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02326-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "Q02326-1", "length": 176, "uniprot_id": "RL6A_YEAST", "protein_name": "Large ribosomal subunit protein eL6A", "refseq_ac": "NP_013638", "refseq_name": "60S ribosomal protein eL6 RPL6A", "gene_name": "RPL6A", "gene_names_uniprotkb": "RPL6A; RPL17A; YL16A", "gene_names_refseq": "RPL6A; YL16A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326" }, { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004538", "url": "https://www.yeastgenome.org/locus/S000004538", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSAQKAPKWYP", "down_seq": "EDVAALKKTRKAARPQKLRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004538", "url": "https://www.yeastgenome.org/locus/S000004538" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser12" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q02326-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02326-1.160.160", "start_pos": 160, "end_pos": 160, "uniprot_canonical_ac": "Q02326-1", "length": 176, "uniprot_id": "RL6A_YEAST", "protein_name": "Large ribosomal subunit protein eL6A", "refseq_ac": "NP_013638", "refseq_name": "60S ribosomal protein eL6 RPL6A", "gene_name": "RPL6A", "gene_names_uniprotkb": "RPL6A; RPL17A; YL16A", "gene_names_refseq": "RPL6A; YL16A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VVDKALIAEIKKTPLLKQYL", "down_seq": "ASFSLKNGDKPHMLKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser160" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q02326-1.162.162", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02326-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "Q02326-1", "length": 176, "uniprot_id": "RL6A_YEAST", "protein_name": "Large ribosomal subunit protein eL6A", "refseq_ac": "NP_013638", "refseq_name": "60S ribosomal protein eL6 RPL6A", "gene_name": "RPL6A", "gene_names_uniprotkb": "RPL6A; RPL17A; YL16A", "gene_names_refseq": "RPL6A; YL16A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] } ], "crossref": [ { "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKALIAEIKKTPLLKQYLSA", "down_seq": "FSLKNGDKPHMLKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ], "site_lbl": "Ser162" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q02326-1.160.160", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02326-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "Q02326-1", "length": 176, "uniprot_id": "RL6A_YEAST", "protein_name": "Large ribosomal subunit protein eL6A", "refseq_ac": "NP_013638", "refseq_name": "60S ribosomal protein eL6 RPL6A", "gene_name": "RPL6A", "gene_names_uniprotkb": "RPL6A; RPL17A; YL16A", "gene_names_refseq": "RPL6A; YL16A", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02326", "url": "https://www.uniprot.org/uniprotkb/Q02326" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004538", "url": "https://www.yeastgenome.org/locus/S000004538", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "AQKAPKWYPSEDVAALKKTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004538", "url": "https://www.yeastgenome.org/locus/S000004538" }, { "database": "iPTMnet", "id": "Q02326", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02326" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "160", "end_pos": "160" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "Q02326-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02516-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "Q02516-1", "length": 242, "uniprot_id": "HAP5_YEAST", "protein_name": "Transcriptional activator HAP5", "refseq_ac": "NP_015003", "refseq_name": "Hap5p", "gene_name": "HAP5", "gene_names_uniprotkb": "HAP5", "gene_names_refseq": "HAP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTDRNFSPQQGQGPQE", "down_seq": "LPEGPQPSTMIQREEMNMPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "17", "end_pos": "17" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q02516-1.7.7", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02516-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "Q02516-1", "length": 242, "uniprot_id": "HAP5_YEAST", "protein_name": "Transcriptional activator HAP5", "refseq_ac": "NP_015003", "refseq_name": "Hap5p", "gene_name": "HAP5", "gene_names_uniprotkb": "HAP5", "gene_names_refseq": "HAP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EGPQPSTMIQREEMNMPRQY", "down_seq": "EQQQLQENEGEGENTRLPVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "17", "end_pos": "17" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "Q02516-1.60.60", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02516-1.60.60", "start_pos": 60, "end_pos": 60, "uniprot_canonical_ac": "Q02516-1", "length": 242, "uniprot_id": "HAP5_YEAST", "protein_name": "Transcriptional activator HAP5", "refseq_ac": "NP_015003", "refseq_name": "Hap5p", "gene_name": "HAP5", "gene_names_uniprotkb": "HAP5", "gene_names_refseq": "HAP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEQQQLQENEGEGENTRLPV", "down_seq": "EEEFRMVQELQAIQAGHDQA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser60" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "17", "end_pos": "17" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02516-1.40.40", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02516-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "Q02516-1", "length": 242, "uniprot_id": "HAP5_YEAST", "protein_name": "Transcriptional activator HAP5", "refseq_ac": "NP_015003", "refseq_name": "Hap5p", "gene_name": "HAP5", "gene_names_uniprotkb": "HAP5", "gene_names_refseq": "HAP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTDRNF", "down_seq": "PQQGQGPQESLPEGPQPSTM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" }, { "database": "SGD", "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "17", "end_pos": "17" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "Q02516-1.17.17", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02516-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "Q02516-1", "length": 242, "uniprot_id": "HAP5_YEAST", "protein_name": "Transcriptional activator HAP5", "refseq_ac": "NP_015003", "refseq_name": "Hap5p", "gene_name": "HAP5", "gene_names_uniprotkb": "HAP5", "gene_names_refseq": "HAP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ELQAIQAGHDQANLPPSGRG", "down_seq": "LEGEDNGNSDGADGEMDEDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser89" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "17", "end_pos": "17" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "Q02516-1.98.98", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02516-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "Q02516-1", "length": 242, "uniprot_id": "HAP5_YEAST", "protein_name": "Transcriptional activator HAP5", "refseq_ac": "NP_015003", "refseq_name": "Hap5p", "gene_name": "HAP5", "gene_names_uniprotkb": "HAP5", "gene_names_refseq": "HAP5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02516", "url": "https://www.uniprot.org/uniprotkb/Q02516" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DQANLPPSGRGSLEGEDNGN", "down_seq": "DGADGEMDEDDEEYDVFRNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005885", "url": "https://www.yeastgenome.org/locus/S000005885" }, { "database": "iPTMnet", "id": "Q02516", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02516" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser98" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "17", "end_pos": "17" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "60", "end_pos": "60" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "89", "end_pos": "89" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q02516-1.89.89", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02888-1.158.158", "start_pos": 158, "end_pos": 158, "uniprot_canonical_ac": "Q02888-1", "length": 182, "uniprot_id": "INA17_YEAST", "protein_name": "Inner membrane assembly complex subunit 17", "refseq_ac": "NP_015226", "refseq_name": "Ina17p", "gene_name": "INA17", "gene_names_uniprotkb": "INA17; AIM43; FMP14", "gene_names_refseq": "AIM43; FMP14; INA17", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02888", "url": "https://www.uniprot.org/uniprotkb/Q02888" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q02888", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888" }, { "database": "O-GlcNAc Atlas", "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LKKEVEILEHQLNELIVQDK", "down_seq": "HNTSRGKGSNESTHMKPWYR", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "T", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr158", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q02888", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q02888" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "158", "end_pos": "158" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "167", "end_pos": "167" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q02888-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02888-1.162.162", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02888-1.167.167", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02888-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "Q02888-1", "length": 182, "uniprot_id": "INA17_YEAST", "protein_name": "Inner membrane assembly complex subunit 17", "refseq_ac": "NP_015226", "refseq_name": "Ina17p", "gene_name": "INA17", "gene_names_uniprotkb": "INA17; AIM43; FMP14", "gene_names_refseq": "AIM43; FMP14; INA17", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02888", "url": "https://www.uniprot.org/uniprotkb/Q02888" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q02888", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888" }, { "database": "O-GlcNAc Atlas", "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EVEILEHQLNELIVQDKTHN", "down_seq": "SRGKGSNESTHMKPWYRRWF", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "T", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr161", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q02888", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q02888" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "158", "end_pos": "158" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "167", "end_pos": "167" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q02888-1.158.158", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02888-1.162.162", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02888-1.167.167", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02888-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "Q02888-1", "length": 182, "uniprot_id": "INA17_YEAST", "protein_name": "Inner membrane assembly complex subunit 17", "refseq_ac": "NP_015226", "refseq_name": "Ina17p", "gene_name": "INA17", "gene_names_uniprotkb": "INA17; AIM43; FMP14", "gene_names_refseq": "AIM43; FMP14; INA17", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02888", "url": "https://www.uniprot.org/uniprotkb/Q02888" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q02888", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888" }, { "database": "O-GlcNAc Atlas", "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VEILEHQLNELIVQDKTHNT", "down_seq": "RGKGSNESTHMKPWYRRWFW", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser162", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q02888", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q02888" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "158", "end_pos": "158" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "167", "end_pos": "167" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q02888-1.158.158", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02888-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02888-1.167.167", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02888-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "Q02888-1", "length": 182, "uniprot_id": "INA17_YEAST", "protein_name": "Inner membrane assembly complex subunit 17", "refseq_ac": "NP_015226", "refseq_name": "Ina17p", "gene_name": "INA17", "gene_names_uniprotkb": "INA17; AIM43; FMP14", "gene_names_refseq": "AIM43; FMP14; INA17", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02888", "url": "https://www.uniprot.org/uniprotkb/Q02888" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q02888", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888" }, { "database": "O-GlcNAc Atlas", "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HQLNELIVQDKTHNTSRGKG", "down_seq": "NESTHMKPWYRRWFW", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser167", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q02888", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q02888" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "158", "end_pos": "158" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "167", "end_pos": "167" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q02888-1.158.158", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02888-1.161.161", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02888-1.162.162", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02888-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q02888-1", "length": 182, "uniprot_id": "INA17_YEAST", "protein_name": "Inner membrane assembly complex subunit 17", "refseq_ac": "NP_015226", "refseq_name": "Ina17p", "gene_name": "INA17", "gene_names_uniprotkb": "INA17; AIM43; FMP14", "gene_names_refseq": "AIM43; FMP14; INA17", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02888", "url": "https://www.uniprot.org/uniprotkb/Q02888" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q02888", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888" }, { "database": "O-GlcNAc Atlas", "id": "Q02888", "url": "https://oglcnac.org/atlas/detail/Q02888" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02888", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888", "database": "O-GlcNAc Database", "categories": [ "Other" ] } ], "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q02888", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02888" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "158", "end_pos": "158" }, { "start_pos": "161", "end_pos": "161" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "167", "end_pos": "167" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03071-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "Q03071-1", "length": 99, "uniprot_id": "ELOC_YEAST", "protein_name": "Elongin-C", "refseq_ac": "NP_015279", "refseq_name": "elongin C", "gene_name": "ELC1", "gene_names_uniprotkb": "ELC1", "gene_names_refseq": "ELC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSQDFVTLVSKDDKEYEISR", "down_seq": "AAMISPTLKAMIEGPFRESK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967" }, { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser21" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03071-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03071-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03071-1.28.28", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03071-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "Q03071-1", "length": 99, "uniprot_id": "ELOC_YEAST", "protein_name": "Elongin-C", "refseq_ac": "NP_015279", "refseq_name": "elongin C", "gene_name": "ELC1", "gene_names_uniprotkb": "ELC1", "gene_names_refseq": "ELC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VTLVSKDDKEYEISRSAAMI", "down_seq": "PTLKAMIEGPFRESKGRIEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967" }, { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q03071-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03071-1.28.28", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03071-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "Q03071-1", "length": 99, "uniprot_id": "ELOC_YEAST", "protein_name": "Elongin-C", "refseq_ac": "NP_015279", "refseq_name": "elongin C", "gene_name": "ELC1", "gene_names_uniprotkb": "ELC1", "gene_names_refseq": "ELC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LVSKDDKEYEISRSAAMISP", "down_seq": "LKAMIEGPFRESKGRIELKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967" }, { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr28" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q03071-1.21.21", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03071-1.26.26", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03071-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "Q03071-1", "length": 99, "uniprot_id": "ELOC_YEAST", "protein_name": "Elongin-C", "refseq_ac": "NP_015279", "refseq_name": "elongin C", "gene_name": "ELC1", "gene_names_uniprotkb": "ELC1", "gene_names_refseq": "ELC1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071" }, { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "QDFVTLVSKDDKEYEISRSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03071", "url": "https://www.uniprot.org/uniprotkb/Q03071" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "iPTMnet", "id": "Q03071", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03071" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005967", "url": "https://www.yeastgenome.org/locus/S000005967" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "Q03071-1.21.21", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.578.578", "start_pos": 578, "end_pos": 578, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q03195", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03195" }, { "database": "O-GlcNAc Atlas", "id": "Q03195", "url": "https://oglcnac.org/atlas/detail/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03195", "url": "https://oglcnac.org/atlas/detail/Q03195", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LTGCNRFLKNLNVTFRRDPN", "down_seq": "FRPRINKLDSQMDKEQKSSG", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser578", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03195", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03195" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identification of novel O-GlcNAc transferase substrates using yeast cells expressing OGT.", "journal": "The Journal of general and applied microbiology", "date": "2021-04-16", "authors": "Li Feng, Yang Ganglong, Tachikawa Hiroyuki, Shao Kankai, Yang Yan, Gao Xiao-Dong, Nakanishi Hideki", "evidence": [ { "database": "O-GlcNAc Database", "id": "Q03195", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03195" }, { "database": "O-GlcNAc Atlas", "id": "Q03195", "url": "https://oglcnac.org/atlas/detail/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03195", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03195", "database": "O-GlcNAc Database", "categories": [ "Other" ] } ], "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03195", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03195" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "Q03195-1.12.12", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The essential ATP-binding cassette protein RLI1 functions in translation by promoting preinitiation complex assembly.", "journal": "The Journal of biological chemistry", "date": "2004-10-01", "authors": "Dong Jinsheng, Lai Ruby, Nielsen Klaus, Fekete Christie A, Qiu Hongfang, Hinnebusch Alan G", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "RYIKILQLENVLKRDIEKLS", "down_seq": "GELQRFAIGMSCVQEADVYM", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Lethal; when associated with D-225.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03195-1.225.225", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The essential ATP-binding cassette protein RLI1 functions in translation by promoting preinitiation complex assembly.", "journal": "The Journal of biological chemistry", "date": "2004-10-01", "authors": "Dong Jinsheng, Lai Ruby, Nielsen Klaus, Fekete Christie A, Qiu Hongfang, Hinnebusch Alan G", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "YIKILQLENVLKRDIEKLSG", "down_seq": "ELQRFAIGMSCVQEADVYMF", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Lethal; when associated with D-224.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03195-1.224.224", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The function of ORAOV1/LTO1, a gene that is overexpressed frequently in cancer: essential roles in the function and biogenesis of the ribosome.", "journal": "Oncogene", "date": "2014", "authors": "Zhai C, Li Y, Mascarenhas C, Lin Q, Li K, Vyrides I, Grant CM, Panaretou B", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "23318452", "url": "https://glygen.org/publication/PubMed/23318452" } ] }, { "title": "The deca-GX3 proteins Yae1-Lto1 function as adaptors recruiting the ABC protein Rli1 for iron-sulfur cluster insertion.", "journal": "eLife", "date": "2015-07-16", "authors": "Paul Viktoria D\u00e9sir\u00e9e, M\u00fchlenhoff Ulrich, St\u00fcmpfig Martin, Seebacher Jan, Kugler Karl G, Renicke Christian, Taxis Christof, Gavin Anne-Claude, Pierik Antonio J, Lill Roland", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "26182403", "url": "https://glygen.org/publication/PubMed/26182403" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "23318452", "url": "https://glygen.org/publication/PubMed/23318452", "database": "PubMed", "categories": [ "Other" ] }, { "id": "26182403", "url": "https://glygen.org/publication/PubMed/26182403", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "NSRIAIVSADKCKPKKCRQE", "down_seq": "KRSCPVVKTGKLCIEVTPTS", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Not viable in aerobic conditions. Lethal; when associated with S-61.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "23318452", "url": "https://glygen.org/publication/PubMed/23318452" }, { "database": "PubMed", "id": "26182403", "url": "https://glygen.org/publication/PubMed/26182403" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03195-1.12.12", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03195-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.470.470", "start_pos": 470, "end_pos": 470, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The essential ATP-binding cassette protein RLI1 functions in translation by promoting preinitiation complex assembly.", "journal": "The Journal of biological chemistry", "date": "2004-10-01", "authors": "Dong Jinsheng, Lai Ruby, Nielsen Klaus, Fekete Christie A, Qiu Hongfang, Hinnebusch Alan G", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "DVVKPLRIDDIIDQEVQHLS", "down_seq": "GELQRVAIVLALGIPADIYL", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Lethal; when associated with D-471.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03195-1.471.471", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The essential ATP-binding cassette protein RLI1 functions in translation by promoting preinitiation complex assembly.", "journal": "The Journal of biological chemistry", "date": "2004-10-01", "authors": "Dong Jinsheng, Lai Ruby, Nielsen Klaus, Fekete Christie A, Qiu Hongfang, Hinnebusch Alan G", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "VVKPLRIDDIIDQEVQHLSG", "down_seq": "ELQRVAIVLALGIPADIYLI", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "D", "comment": "Lethal; when associated with D-470.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03195-1.470.470", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The essential ATP-binding cassette protein RLI1 functions in translation by promoting preinitiation complex assembly.", "journal": "The Journal of biological chemistry", "date": "2004-10-01", "authors": "Dong Jinsheng, Lai Ruby, Nielsen Klaus, Fekete Christie A, Qiu Hongfang, Hinnebusch Alan G", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "LQRVAIVLALGIPADIYLID", "down_seq": "PSAYLDSEQRIICSKVIRRF", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "Q", "comment": "Lethal. Inhibits translation in vitro.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "15277527", "url": "https://glygen.org/publication/PubMed/15277527" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The deca-GX3 proteins Yae1-Lto1 function as adaptors recruiting the ABC protein Rli1 for iron-sulfur cluster insertion.", "journal": "eLife", "date": "2015-07-16", "authors": "Paul Viktoria D\u00e9sir\u00e9e, M\u00fchlenhoff Ulrich, St\u00fcmpfig Martin, Seebacher Jan, Kugler Karl G, Renicke Christian, Taxis Christof, Gavin Anne-Claude, Pierik Antonio J, Lill Roland", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "reference": [ { "type": "PubMed", "id": "26182403", "url": "https://glygen.org/publication/PubMed/26182403" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "26182403", "url": "https://glygen.org/publication/PubMed/26182403", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "VTPTSKIAFISEILCIGCGI", "down_seq": "VKKCPFDAIQIINLPTNLEA", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "S", "comment": "Lethal; when associated with S-25.", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "26182403", "url": "https://glygen.org/publication/PubMed/26182403" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03195-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSDKNSRIAIV", "down_seq": "ADKCKPKKCRQECKRSCPVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser12" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q03195-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03195-1.25.25", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IPAENLRFRTEALQFRIADA", "down_seq": "EDLQNDSASRAFSYPSLKKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr342" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "Q03195-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03195-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03195-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03195-1.358.358", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FRTEALQFRIADATEDLQND", "down_seq": "ASRAFSYPSLKKTQGDFVLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q03195-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03195-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03195-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03195-1.358.358", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Mol. Cell. Proteomics", "date": "2008", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TEALQFRIADATEDLQNDSA", "down_seq": "RAFSYPSLKKTQGDFVLNVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03195-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03195-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03195-1.355.355", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03195-1.358.358", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.355.355", "start_pos": 355, "end_pos": 355, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QFRIADATEDLQNDSASRAF", "down_seq": "YPSLKKTQGDFVLNVEEGEF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser355" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03195-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03195-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03195-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03195-1.358.358", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.358.358", "start_pos": 358, "end_pos": 358, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IADATEDLQNDSASRAFSYP", "down_seq": "LKKTQGDFVLNVEEGEFSDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser358" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03195-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03195-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03195-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03195-1.355.355", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RQECKRSCPVVKTGKLCIEV", "down_seq": "PTSKIAFISEILCIGCGICV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr42" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03195-1.25.25", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03195-1.61.61", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03195-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "Q03195-1", "length": 608, "uniprot_id": "RLI1_YEAST", "protein_name": "Translation initiation factor RLI1", "refseq_ac": "NP_010376", "refseq_name": "Fe-S cluster-binding ribosome biosynthesis protein", "gene_name": "RLI1", "gene_names_uniprotkb": "RLI1", "gene_names_refseq": "RLI1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03195", "url": "https://www.uniprot.org/uniprotkb/Q03195" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QIINLPTNLEAHVTHRYSAN", "down_seq": "FKLHRLPTPRPGQVLGLVGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002498", "url": "https://www.yeastgenome.org/locus/S000002498" }, { "database": "iPTMnet", "id": "Q03195", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03195" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "578", "end_pos": "578" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "224", "end_pos": "224" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "61", "end_pos": "61" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "355", "end_pos": "355" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MGNRSLTEADHALL", "down_seq": "KPLVPTSAEHTQTQEYPRPF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser15" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q03407-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03407-1.7.7", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "J. Proteome Res.", "date": "2007", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "The rapamycin-sensitive phosphoproteome reveals that TOR controls protein kinase A toward some but not all substrates.", "journal": "Molecular biology of the cell", "date": "2010-10-01", "authors": "Soulard Alexandre, Cremonesi Alessio, Moes Suzette, Sch\u00fctz Fr\u00e9d\u00e9ric, Jen\u00f6 Paul, Hall Michael N", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPEEPSNTADGKPYFDLYAK", "down_seq": "KSFVGTAEYVSPELLNDNYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser294" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q03407-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03407-1.300.300", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03407-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway.", "journal": "Molecular & cellular proteomics : MCP", "date": "2005-03", "authors": "Gruhler Albrecht, Olsen Jesper V, Mohammed Shabaz, Mortensen Peter, Faergeman Nils J, Mann Matthias, Jensen Ole N", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEPSNTADGKPYFDLYAKSK", "down_seq": "FVGTAEYVSPELLNDNYTDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q03407-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03407-1.300.300", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03407-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.300.300", "start_pos": 300, "end_pos": 300, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NTADGKPYFDLYAKSKSFVG", "down_seq": "AEYVSPELLNDNYTDSRCDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr300" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q03407-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03407-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03407-1.303.303", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.303.303", "start_pos": 303, "end_pos": 303, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "DGKPYFDLYAKSKSFVGTAE", "down_seq": "VSPELLNDNYTDSRCDIWAF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr303" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03407-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03407-1.296.296", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03407-1.300.300", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.485.485", "start_pos": 485, "end_pos": 485, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TAATAAFNKDYTSQPKLGSK", "down_seq": "STSVRSASNNTDREVIQKKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser485" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q03407-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03407-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03407-1.496.496", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.491.491", "start_pos": 491, "end_pos": 491, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FNKDYTSQPKLGSKSSTSVR", "down_seq": "ASNNTDREVIQKKVSKNRAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser491" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q03407-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03407-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03407-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03407-1.511.511", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" } ] }, { "title": "Global analysis of the yeast osmotic stress response by quantitative proteomics.", "journal": "Molecular bioSystems", "date": "2009-11", "authors": "Soufi Boumediene, Kelstrup Christian D, Stoehr Gabriele, Fr\u00f6hlich Florian, Walther Tobias C, Olsen Jesper V", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDYTSQPKLGSKSSTSVRSA", "down_seq": "NNTDREVIQKKVSKNRASVS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser493" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q03407-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03407-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03407-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03407-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03407-1.513.513", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.", "journal": "Science signaling", "date": "2010-12-21", "authors": "Bodenmiller Bernd, Wanka Stefanie, Kraft Claudine, Urban J\u00f6rg, Campbell David, Pedrioli Patrick G, Gerrits Bertran, Picotti Paola, Lam Henry, Vitek Olga, Brusniak Mi-Youn, Roschitzki Bernd, Zhang Chao, Shokat Kevan M, Schlapbach Ralph, Colman-Lerner Alejandro, Nolan Garry P, Nesvizhskii Alexey I, Peter Matthias, Loewith Robbie, von Mering Christian, Aebersold Ruedi", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TSQPKLGSKSSTSVRSASNN", "down_seq": "DREVIQKKVSKNRASVSSPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr496" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q03407-1.485.485", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03407-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03407-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03407-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03407-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03407-1.514.514", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03407-1.516.516", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EYPRPFVDGSNSQSGSELQA", "down_seq": "PQGQFGEKALTSTNRFIPLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser50" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "Q03407-1.61.61", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.511.511", "start_pos": 511, "end_pos": 511, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SASNNTDREVIQKKVSKNRA", "down_seq": "VSSPSISTTSRGKDNRSRSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser511" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03407-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03407-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03407-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03407-1.513.513", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03407-1.514.514", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03407-1.516.516", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03407-1.519.519", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03407-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03407-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03407-1.530.530", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03407-1.531.531", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03407-1.513.513", "start_pos": 513, "end_pos": 513, "uniprot_canonical_ac": "Q03407-1", "length": 766, "uniprot_id": "PKH1_YEAST", "protein_name": "Serine/threonine-protein kinase PKH1", "refseq_ac": "NP_010778", "refseq_name": "serine/threonine protein kinase PKH1", "gene_name": "PKH1", "gene_names_uniprotkb": "PKH1", "gene_names_refseq": "PKH1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03407", "url": "https://www.uniprot.org/uniprotkb/Q03407" }, { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNNTDREVIQKKVSKNRASV", "down_seq": "SPSISTTSRGKDNRSRSSDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03407", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03407" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000002898", "url": "https://www.yeastgenome.org/locus/S000002898" }, { "database": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser513" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "296", "end_pos": "296" }, { "start_pos": "300", "end_pos": "300" }, { "start_pos": "303", "end_pos": "303" }, { "start_pos": "485", "end_pos": "485" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "511", "end_pos": "511" }, { "start_pos": "513", "end_pos": "513" }, { "start_pos": "514", "end_pos": "514" }, { "start_pos": "516", "end_pos": "516" }, { "start_pos": "519", "end_pos": "519" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "528", "end_pos": "528" }, { "start_pos": "530", "end_pos": "530" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "538", "end_pos": "538" }, { "start_pos": "562", "end_pos": "562" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03407-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q03407-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03407-1.511.511", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03407-1.514.514", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03407-1.516.516", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03407-1.519.519", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03407-1.520.520", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03407-1.528.528", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03407-1.530.530", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03407-1.531.531", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] } ]